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| | ==Helicase binding domain of primase from Mycobacterium tuberculosis== | | ==Helicase binding domain of primase from Mycobacterium tuberculosis== |
| - | <StructureSection load='5z51' size='340' side='right' caption='[[5z51]], [[Resolution|resolution]] 1.58Å' scene=''> | + | <StructureSection load='5z51' size='340' side='right'caption='[[5z51]], [[Resolution|resolution]] 1.58Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5z51]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z51 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z51 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5z51]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Rv Mycobacterium tuberculosis H37Rv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z51 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Z51 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <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]] 1.583Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">dnaG, Rv2343c, MTCY98.12c ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])</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=5z51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z51 OCA], [https://pdbe.org/5z51 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5z51 RCSB], [https://www.ebi.ac.uk/pdbsum/5z51 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5z51 ProSAT]</span></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=5z51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z51 OCA], [http://pdbe.org/5z51 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z51 RCSB], [http://www.ebi.ac.uk/pdbsum/5z51 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z51 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/DNAG_MYCTU DNAG_MYCTU]] RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. | + | [https://www.uniprot.org/uniprot/DNAG_MYCTU DNAG_MYCTU] RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 5z51" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 5z51" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[RNA polymerase 3D structures|RNA polymerase 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Myctu]] | + | [[Category: Large Structures]] |
| - | [[Category: Gourinath, S]] | + | [[Category: Mycobacterium tuberculosis H37Rv]] |
| - | [[Category: Sharma, D P]] | + | [[Category: Gourinath S]] |
| - | [[Category: Dna replication]] | + | [[Category: Sharma DP]] |
| - | [[Category: Helicase binding domain of primase]]
| + | |
| - | [[Category: Primer synthesis]]
| + | |
| - | [[Category: Transferase]]
| + | |
| Structural highlights
Function
DNAG_MYCTU RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.
Publication Abstract from PubMed
The helicase-primase interaction is an essential event in DNA replication and is mediated by the highly variable C-terminal domain of primase (DnaG) and N-terminal domain of helicase (DnaB). To understand the functional conservation despite the low sequence homology of the DnaB-binding domains of DnaGs of eubacteria, we determined the crystal structure of the helicase-binding domain of DnaG from Mycobacterium tuberculosis (MtDnaG-CTD) and did so to a resolution of 1.58 A. We observed the overall structure of MtDnaG-CTD to consist of two subdomains, the N-terminal globular region (GR) and the C-terminal helical hairpin region (HHR), connected by a small loop. Despite differences in some of its helices, the globular region was found to have broadly similar arrangements across the species, whereas the helical hairpins showed different orientations. To gain insights into the crucial helicase-primase interaction in M. tuberculosis, a complex was modeled using the MtDnaG-CTD and MtDnaB-NTD crystal structures. Two nonconserved hydrophobic residues (Ile605 and Phe615) of MtDnaG were identified as potential key residues interacting with MtDnaB. Biosensor-binding studies showed a significant decrease in the binding affinity of MtDnaB-NTD with the Ile605Ala mutant of MtDnaG-CTD compared with native MtDnaG-CTD. The loop, connecting the two helices of the HHR, was concluded to be largely responsible for the stability of the DnaB-DnaG complex. Also, MtDnaB-NTD showed micromolar affinity with DnaG-CTDs from Escherichia coli and Helicobacter pylori and unstable binding with DnaG-CTD from Vibrio cholerae The interacting domains of both DnaG and DnaB demonstrate the species-specific evolution of the replication initiation system.
Structural insights into the interaction of helicase and primase in Mycobacterium tuberculosis.,Sharma DP, Vijayan R, Rehman SAA, Gourinath S Biochem J. 2018 Nov 15;475(21):3493-3509. doi: 10.1042/BCJ20180673. PMID:30315069[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Sharma DP, Vijayan R, Rehman SAA, Gourinath S. Structural insights into the interaction of helicase and primase in Mycobacterium tuberculosis. Biochem J. 2018 Nov 15;475(21):3493-3509. doi: 10.1042/BCJ20180673. PMID:30315069 doi:http://dx.doi.org/10.1042/BCJ20180673
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