5bn3: Difference between revisions

Revision as of 06:00, 7 June 2023

Structure of a unique ATP synthase NeqA-NeqB in complex with ADP from Nanoarcheaum equitans

Structural highlights

5bn3 is a 2 chain structure with sequence from Nanoarchaeum equitans Kin4-M. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	ADP, DIO, GOL, MG, SO4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

VATA_NANEQ Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.

Publication Abstract from PubMed

ATP synthesis is a critical and universal life process carried out by ATP synthases. Whereas eukaryotic and prokaryotic ATP synthases are well characterized, archaeal ATP synthases are relatively poorly understood. The hyperthermophilic archaeal parasite, Nanoarcheaum equitans lacks several subunits of the ATP synthase and is suspected to be energetically dependent on its host, Ignicoccus hospitalis. This suggests that this ATP synthase might be a rudimentary machine. Here, we report the crystal structure and biophysical studies of the regulatory subunit, NeqB, the apo NeqAB, and NeqAB in complex with nucleotides, ADP and AMP-PNP. NeqB is approximately 20 amino acids shorter at its C-terminus than its homologs but this does not impede its binding with NeqA to form the complex. The heterodimeric NeqAB complex assumes a closed, rigid conformation irrespective of nucleotide binding; this differs from its homologs, which require conformational changes for catalytic activity. Thus, although N. equitans possesses an ATP synthase core A3B3 hexameric complex, it might not function as a bona fide ATP synthase.

Structural basis for a unique ATP synthase core complex from Nanoarcheaum Equitans.,Mohanty S, Jobichen C, Chichili VP, Velazquez-Campoy A, Low BC, Hogue CW, Sivaraman J J Biol Chem. 2015 Sep 14. pii: jbc.M115.677492. PMID:26370083^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Mohanty S, Jobichen C, Chichili VP, Velazquez-Campoy A, Low BC, Hogue CW, Sivaraman J. Structural basis for a unique ATP synthase core complex from Nanoarcheaum Equitans. J Biol Chem. 2015 Sep 14. pii: jbc.M115.677492. PMID:26370083 doi:https://dx.doi.org/10.1074/jbc.M115.677492

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OCA

[1] Mohanty S, Jobichen C, Chichili VP, Velazquez-Campoy A, Low BC, Hogue CW, Sivaraman J. Structural basis for a unique ATP synthase core complex from Nanoarcheaum Equitans. J Biol Chem. 2015 Sep 14. pii: jbc.M115.677492. PMID:26370083 doi:https://dx.doi.org/10.1074/jbc.M115.677492

[1]

@@ Line 1: / Line 1: @@
 ==Structure of a unique ATP synthase NeqA-NeqB in complex with ADP from Nanoarcheaum equitans==
-<StructureSection load='5bn3' size='340' side='right' caption='[[5bn3]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+<StructureSection load='5bn3' size='340' side='right'caption='[[5bn3]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5bn3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Microarchaeum_sp._kin4-m Microarchaeum sp. kin4-m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BN3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5BN3 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5bn3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Nanoarchaeum_equitans_Kin4-M Nanoarchaeum equitans Kin4-M]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BN3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5BN3 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5bn4|5bn4]], [[5bn5|5bn5]], [[5bo5|5bo5]]</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=5bn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bn3 OCA], [https://pdbe.org/5bn3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5bn3 RCSB], [https://www.ebi.ac.uk/pdbsum/5bn3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5bn3 ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">atpA, NEQ103 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=228908 Microarchaeum sp. Kin4-M]), NEQ263 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=228908 Microarchaeum sp. Kin4-M])</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] </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=5bn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bn3 OCA], [http://pdbe.org/5bn3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5bn3 RCSB], [http://www.ebi.ac.uk/pdbsum/5bn3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5bn3 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/VATA_NANEQ VATA_NANEQ]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.
+[https://www.uniprot.org/uniprot/VATA_NANEQ VATA_NANEQ] Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 18: @@
 </div>
 <div class="pdbe-citations 5bn3" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[ATPase 3D structures|ATPase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Microarchaeum sp. kin4-m]]
+[[Category: Large Structures]]
-[[Category: Chichili, V P.R]]
+[[Category: Nanoarchaeum equitans Kin4-M]]
-[[Category: Jobichen, C]]
+[[Category: Chichili VPR]]
-[[Category: Mohanty, S]]
+[[Category: Jobichen C]]
-[[Category: Sivaraman, J]]
+[[Category: Mohanty S]]
-[[Category: Atp synthase]]
+[[Category: Sivaraman J]]
-[[Category: Catalytic core]]
-[[Category: Hydrolase]]
-[[Category: Nanoarcheaum equitan]]

5bn3: Difference between revisions

Revision as of 06:00, 7 June 2023

Structure of a unique ATP synthase NeqA-NeqB in complex with ADP from Nanoarcheaum equitans

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

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