1daf: Difference between revisions

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[[Image:1daf.png|left|200px]]


{{STRUCTURE_1daf|  PDB=1daf  |  SCENE=  }}
==DETHIOBIOTIN SYNTHETASE COMPLEXED WITH 7-(CARBOXYAMINO)-8-AMINO-NONANOIC ACID, ADP, AND CALCIUM==
 
<StructureSection load='1daf' size='340' side='right'caption='[[1daf]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
===DETHIOBIOTIN SYNTHETASE COMPLEXED WITH 7-(CARBOXYAMINO)-8-AMINO-NONANOIC ACID, ADP, AND CALCIUM===
== Structural highlights ==
 
<table><tr><td colspan='2'>[[1daf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DAF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DAF FirstGlance]. <br>
{{ABSTRACT_PUBMED_7669756}}
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=DSD:7-(CARBOXYAMINO)-8-AMINO-NONANOIC+ACID'>DSD</scene></td></tr>
==About this Structure==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1daf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1daf OCA], [https://pdbe.org/1daf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1daf RCSB], [https://www.ebi.ac.uk/pdbsum/1daf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1daf ProSAT]</span></td></tr>
[[1daf]] is a 1 chain structure of [[Dethiobiotin synthetase]] with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DAF OCA].  
</table>
== Function ==
[https://www.uniprot.org/uniprot/BIOD1_ECOLI BIOD1_ECOLI] Catalyzes a mechanistically unusual reaction, the ATP-dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring. Only CTP can partially replace ATP while diaminobiotin is only 37% as effective as 7,8-diaminopelargonic acid.<ref>PMID:4892372</ref> <ref>PMID:4921568</ref>
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/da/1daf_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1daf ConSurf].
<div style="clear:both"></div>


==See Also==
==See Also==
*[[Dethiobiotin synthetase|Dethiobiotin synthetase]]
*[[Dethiobiotin synthetase 3D structures|Dethiobiotin synthetase 3D structures]]
 
== References ==
==Reference==
<references/>
<ref group="xtra">PMID:007669756</ref><references group="xtra"/>
__TOC__
[[Category: Dethiobiotin synthase]]
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Huang, W.]]
[[Category: Large Structures]]
[[Category: Jia, J.]]
[[Category: Huang W]]
[[Category: Lindqvist, Y.]]
[[Category: Jia J]]
[[Category: Schneider, G.]]
[[Category: Lindqvist Y]]
[[Category: Atp-binding]]
[[Category: Schneider G]]
[[Category: Biotin biosynthesis]]
[[Category: Ligase]]
[[Category: Magnesium]]

Latest revision as of 09:51, 7 February 2024

DETHIOBIOTIN SYNTHETASE COMPLEXED WITH 7-(CARBOXYAMINO)-8-AMINO-NONANOIC ACID, ADP, AND CALCIUMDETHIOBIOTIN SYNTHETASE COMPLEXED WITH 7-(CARBOXYAMINO)-8-AMINO-NONANOIC ACID, ADP, AND CALCIUM

Structural highlights

1daf is a 1 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.7Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

BIOD1_ECOLI Catalyzes a mechanistically unusual reaction, the ATP-dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring. Only CTP can partially replace ATP while diaminobiotin is only 37% as effective as 7,8-diaminopelargonic acid.[1] [2]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

References

  1. ↑ Eisenberg MA, Krell K. Synthesis of desthiobiotin from 7,8-diaminopelargonic acid in biotin auxotrophs of Escherichia coli K-12. J Bacteriol. 1969 Jun;98(3):1227-31. PMID:4892372
  2. ↑ Krell K, Eisenberg MA. The purification and properties of dethiobiotin synthetase. J Biol Chem. 1970 Dec 25;245(24):6558-66. PMID:4921568

1daf, resolution 1.70Å

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