8bnx: Difference between revisions

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== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[8bnx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Deferribacter_desulfuricans Deferribacter desulfuricans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8BNX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8BNX FirstGlance]. <br>
<table><tr><td colspan='2'>[[8bnx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Deferribacter_desulfuricans Deferribacter desulfuricans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8BNX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8BNX FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</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]] 3.12&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene></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=8bnx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8bnx OCA], [https://pdbe.org/8bnx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8bnx RCSB], [https://www.ebi.ac.uk/pdbsum/8bnx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8bnx 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=8bnx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8bnx OCA], [https://pdbe.org/8bnx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8bnx RCSB], [https://www.ebi.ac.uk/pdbsum/8bnx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8bnx ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[https://www.uniprot.org/uniprot/D3PAZ1_DEFDS D3PAZ1_DEFDS]  
[https://www.uniprot.org/uniprot/D3PAZ1_DEFDS D3PAZ1_DEFDS]  
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Pif1 proteins are DNA helicases belonging to Superfamily 1, with 5' to 3' directionality. They are conserved from bacteria to human and have been shown to be particularly important in eukaryotes for replication and nuclear and mitochondrial genome stability. However, Pif1 functions in bacteria are less known. While most Pif1 from mesophilic bacteria consist of the helicase core with limited N-terminal and C-terminal extensions, some Pif1 from thermophilic bacteria exhibit a C-terminal WYL domain. We solved the crystal structures of Pif1 helicase cores from thermophilic bacteria Deferribacter desulfuricans and Sulfurihydrogenibium sp. in apo and nucleotide bound form. We show that the N-terminal part is important for ligand binding. The full-length Pif1 helicase was predicted based on the Alphafold algorithm and the nucleic acid binding on the Pif1 helicase core and the WYL domain was modelled based on known crystallographic structures. The model predicts that amino acids in the domains 1A, WYL, and linker between the Helicase core and WYL are important for nucleic acid binding. Therefore, the N-terminal and C-terminal extensions may be necessary to strengthen the binding of nucleic acid on these Pif1 helicases. This may be an adaptation to thermophilic conditions.
Structural Studies of Pif1 Helicases from Thermophilic Bacteria.,Rety S, Zhang Y, Fu W, Wang S, Chen WF, Xi XG Microorganisms. 2023 Feb 14;11(2):479. doi: 10.3390/microorganisms11020479. PMID:36838444<ref>PMID:36838444</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 8bnx" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>

Latest revision as of 11:19, 7 February 2024

Crystal structure of Pif1 from Deferribacter desulfuricans in complex with AMPPNPCrystal structure of Pif1 from Deferribacter desulfuricans in complex with AMPPNP

Structural highlights

8bnx is a 2 chain structure with sequence from Deferribacter desulfuricans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 3.12Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

D3PAZ1_DEFDS

8bnx, resolution 3.12Å

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