2fdn: Difference between revisions

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<StructureSection load='2fdn' size='340' side='right'caption='[[2fdn]], [[Resolution|resolution]] 0.94&Aring;' scene=''>
<StructureSection load='2fdn' size='340' side='right'caption='[[2fdn]], [[Resolution|resolution]] 0.94&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[2fdn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_acidurici Clostridium acidurici]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FDN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FDN FirstGlance]. <br>
<table><tr><td colspan='2'>[[2fdn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Gottschalkia_acidurici Gottschalkia acidurici]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FDN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FDN FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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]] 0.94&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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=2fdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fdn OCA], [https://pdbe.org/2fdn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fdn RCSB], [https://www.ebi.ac.uk/pdbsum/2fdn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fdn 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=2fdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fdn OCA], [https://pdbe.org/2fdn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fdn RCSB], [https://www.ebi.ac.uk/pdbsum/2fdn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fdn ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/FER_CLOAC FER_CLOAC]] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.  
[https://www.uniprot.org/uniprot/FER_GOTA9 FER_GOTA9] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.[UniProtKB:P50727]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</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=2fdn ConSurf].
</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=2fdn ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The crystal structure of the 2[4Fe-4S] ferredoxin from Clostridium acidurici has been solved using X-ray diffraction data extending to atomic resolution, 0.94 A, recorded at 100 K. The model was refined with anisotropic representation of atomic displacement parameters for all non-hydrogen atoms and with hydrogens riding on their parent atoms. Stereochemical restraints were applied to the protein chain but not to the iron-sulfur clusters. The final R factor is 10.03 % for all data. Inversion of the final least-squares matrix allowed direct estimation of the errors of individual parameters. The estimated errors in positions for protein main chain atoms are below 0.02 A and about 0.003 A for the heavier [4Fe-4S] cluster atoms. Significant differences between the stereochemistry of the two clusters and distortion of both of them from ideal Td tetrahedral symmetry can be defined in detail at this level of accuracy. Regions of alternative conformations include not only protein side chains but also two regions of the main chain. One such region is the loop of residues 25-29, which was highly disordered in the room temperature structure.
Atomic resolution (0.94 A) structure of Clostridium acidurici ferredoxin. Detailed geometry of [4Fe-4S] clusters in a protein.,Dauter Z, Wilson KS, Sieker LC, Meyer J, Moulis JM Biochemistry. 1997 Dec 23;36(51):16065-73. PMID:9405040<ref>PMID:9405040</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2fdn" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Ferredoxin 3D structures|Ferredoxin 3D structures]]
*[[Ferredoxin 3D structures|Ferredoxin 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Clostridium acidurici]]
[[Category: Gottschalkia acidurici]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Dauter, Z]]
[[Category: Dauter Z]]
[[Category: Meyer, J]]
[[Category: Meyer J]]
[[Category: Moulis, J M]]
[[Category: Moulis JM]]
[[Category: Sieker, L C]]
[[Category: Sieker LC]]
[[Category: Wilson, K S]]
[[Category: Wilson KS]]
[[Category: 4fe-4]]
[[Category: Electron transport]]
[[Category: Iron-sulfur]]

Latest revision as of 12:22, 14 February 2024

2[4FE-4S] FERREDOXIN FROM CLOSTRIDIUM ACIDI-URICI2[4FE-4S] FERREDOXIN FROM CLOSTRIDIUM ACIDI-URICI

Structural highlights

2fdn is a 1 chain structure with sequence from Gottschalkia acidurici. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 0.94Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

FER_GOTA9 Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.[UniProtKB:P50727]

Evolutionary Conservation

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

See Also

2fdn, resolution 0.94Å

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