1fxd: Difference between revisions

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{{Seed}}
[[Image:1fxd.png|left|200px]]


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==REFINED CRYSTAL STRUCTURE OF FERREDOXIN II FROM DESULFOVIBRIO GIGAS AT 1.7 ANGSTROMS==
The line below this paragraph, containing "STRUCTURE_1fxd", creates the "Structure Box" on the page.
<StructureSection load='1fxd' size='340' side='right'caption='[[1fxd]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1fxd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Megalodesulfovibrio_gigas Megalodesulfovibrio gigas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FXD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FXD FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</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>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SCH:S-METHYL-THIO-CYSTEINE'>SCH</scene></td></tr>
{{STRUCTURE_1fxd|  PDB=1fxd  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1fxd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fxd OCA], [https://pdbe.org/1fxd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fxd RCSB], [https://www.ebi.ac.uk/pdbsum/1fxd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fxd ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/FER_MEGGA FER_MEGGA] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.
== 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/fx/1fxd_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1fxd ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The crystal structure of ferredoxin II from Desulfovibrio gigas has been determined using phasing from anomalous scattering data at a resolution of 1.7 A and refined to an R-factor of 0.157. The molecule has an overall chain fold similar to that of the other bacterial ferredoxins of known structure. The molecule contains a single 3Fe-4S cluster with geometry indistinguishable from the 4Fe-4S clusters, and a disulfide bond near the site corresponding to the position of the second cluster of two-cluster ferredoxins. The cluster is bound by cysteine residues 8, 14 and 50. The side-chain of cysteine 11 extends away from the cluster, but could rotate to become the fourth cysteine ligand in the four-iron form of the molecule given a local adjustment of the polypeptide chain. This residue is modified, however, by what appears to be a methanethiol group. There are a total of eight NH . . . S bonds to the inorganic and cysteine sulfur atoms of the Fe-S cluster. There is an additional residue found that is not reported for the chemical sequence: according to the electron density a valine residue should be inserted after residue 55.


===REFINED CRYSTAL STRUCTURE OF FERREDOXIN II FROM DESULFOVIBRIO GIGAS AT 1.7 ANGSTROMS===
Refined crystal structure of ferredoxin II from Desulfovibrio gigas at 1.7 A.,Kissinger CR, Sieker LC, Adman ET, Jensen LH J Mol Biol. 1991 Jun 20;219(4):693-715. PMID:2056535<ref>PMID:2056535</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 1fxd" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_2056535}}, adds the Publication Abstract to the page
*[[Ferredoxin 3D structures|Ferredoxin 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 2056535 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_2056535}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
1FXD is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_gigas Desulfovibrio gigas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FXD OCA].
[[Category: Megalodesulfovibrio gigas]]
 
[[Category: Adman ET]]
==Reference==
[[Category: Jensen LH]]
Refined crystal structure of ferredoxin II from Desulfovibrio gigas at 1.7 A., Kissinger CR, Sieker LC, Adman ET, Jensen LH, J Mol Biol. 1991 Jun 20;219(4):693-715. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/2056535 2056535]
[[Category: Kissinger CR]]
[[Category: Desulfovibrio gigas]]
[[Category: Sieker LC]]
[[Category: Single protein]]
[[Category: Adman, E T.]]
[[Category: Jensen, L H.]]
[[Category: Kissinger, C R.]]
[[Category: Sieker, L C.]]
 
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Retrieved from "https://proteopedia.org/1fxd"