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| | ==Crystal structure of proliferating cell nuclear antigen from Leishmania donovani at 2.73 Angstrom resolution== | | ==Crystal structure of proliferating cell nuclear antigen from Leishmania donovani at 2.73 Angstrom resolution== |
| - | <StructureSection load='5h0t' size='340' side='right' caption='[[5h0t]], [[Resolution|resolution]] 2.73Å' scene=''> | + | <StructureSection load='5h0t' size='340' side='right'caption='[[5h0t]], [[Resolution|resolution]] 2.73Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5h0t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Leido Leido]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H0T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H0T FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5h0t]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Leishmania_donovani Leishmania donovani]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H0T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H0T FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.73Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PCNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5661 LEIDO])</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></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=5h0t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h0t OCA], [http://pdbe.org/5h0t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h0t RCSB], [http://www.ebi.ac.uk/pdbsum/5h0t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h0t ProSAT]</span></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=5h0t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h0t OCA], [https://pdbe.org/5h0t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h0t RCSB], [https://www.ebi.ac.uk/pdbsum/5h0t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h0t ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/B5TV91_LEIDO B5TV91_LEIDO]] This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.[RuleBase:RU000641] | + | [https://www.uniprot.org/uniprot/B5TV91_LEIDO B5TV91_LEIDO] This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.[RuleBase:RU000641] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | ==See Also== | | ==See Also== |
| - | *[[Proliferating Cell Nuclear Antigen|Proliferating Cell Nuclear Antigen]] | + | *[[Proliferating cell nuclear antigen 3D structures|Proliferating cell nuclear antigen 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Leido]] | + | [[Category: Large Structures]] |
| - | [[Category: Kaur, P]] | + | [[Category: Leishmania donovani]] |
| - | [[Category: Sharma, P S]] | + | [[Category: Kaur P]] |
| - | [[Category: Sharma, S]] | + | [[Category: Sharma PS]] |
| - | [[Category: Singh, P K]] | + | [[Category: Sharma S]] |
| - | [[Category: Singh, T P]] | + | [[Category: Singh PK]] |
| - | [[Category: Yadav, S P]] | + | [[Category: Singh TP]] |
| - | [[Category: Dna binding protein]] | + | [[Category: Yadav SP]] |
| Structural highlights
Function
B5TV91_LEIDO This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.[RuleBase:RU000641]
Publication Abstract from PubMed
Proliferating cell nuclear antigen (PCNA) acts as a sliding clamp to support DNA replication and repair. The structure of PCNA from Leishmania donovani (LdPCNA) has been determined at 2.73A resolution. Structure consists of six crystallographically independent molecules which form two trimeric rings. The pore diameter of the individual trimeric ring is of the order of 37A. The two rings are stacked through their front to front faces. In order to gain a stable packing, the rings are rotated by 42 degrees about the pore axis and shifted by 7A and tilted by 16 degrees along the perpendicular direction to pore axis. This form of stacking reduced the effective diameter of the pore to 32A. The sequence of LdPCNA consists of a long segment of 41 amino acid residues (186-Gly-Val-Ser-Asp-Arg-Ser-Thr-Lys-Ser-Glu-Val-Lys-Ala-Glu-Val-Lys-Ala-Glu-Ala- Arg-Asp-Asp-Asp-Glu-Glu-Pro-Leu-Ser-Arg-Lys-Tyr-Gly-Lys-Ala-Asp-Ser-Ser-Ala-Asn-A la-Ile-226) whereas the corresponding segments in other PCNAs contain only eight residues corresponding to 186-Gly-Val-Ser-Asp-Arg------224-Asn-Ala-Ile-226. The enhanced length of this segment in LdPCNA may influence its mode of interaction with DNA and other proteins. The dissociation constants obtained using real time binding studies with surface plasmon resonance (SPR) for two peptides, Lys-Arg-Arg-Gln-Thr-Ser-Met-Thr-Asp-Phe-Tyr-His (P1) from human cyclin-dependent kinase inhibitor-1(CKI-1) and Lys-Thr-Gln-Gly-Arg-Leu-Asp-Ser-Phe-Phe-Thr-Val (P2) from flap endonuclease 1 (Fen-1) as well as with two small molecule inhibitors, (S)-4-(4-(2-amino-3-hydroxypropyl)-2, 6-diiodophenoxy) phenol hydrochloride (ADPH) and N-(3-methylthiophene-2-carboxylicacid)-N'-((3-hydroxy-2-naphthalenyl) methylene) hydrazide (MCMH) are 0.29+/-0.09muM, 0.37+/-0.08muM, 0.35+/-0.09muM and 1.20+/-0.08muM respectively. The corresponding values obtained using fluorescence spectroscopic methods were 0.22+/-0.06muM, 0.68+/-0.07muM, 0.44+/-0.07muM and 0.75+/-0.05muM respectively.
Structure and binding studies of proliferating cell nuclear antigen from Leishmania donovani.,Yadav SP, Singh PK, Sharma P, Iqbal N, Kaur P, Sharma S, Singh TP Biochim Biophys Acta. 2017 Nov;1865(11 Pt A):1395-1405. doi:, 10.1016/j.bbapap.2017.08.011. Epub 2017 Aug 24. PMID:28844736[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Yadav SP, Singh PK, Sharma P, Iqbal N, Kaur P, Sharma S, Singh TP. Structure and binding studies of proliferating cell nuclear antigen from Leishmania donovani. Biochim Biophys Acta. 2017 Nov;1865(11 Pt A):1395-1405. doi:, 10.1016/j.bbapap.2017.08.011. Epub 2017 Aug 24. PMID:28844736 doi:http://dx.doi.org/10.1016/j.bbapap.2017.08.011
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