This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


2wc1

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (15:51, 13 December 2023) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2wc1.png|left|200px]]
 
-
<!--
+
==Three-dimensional Structure of the Nitrogen Fixation Flavodoxin (NifF) from Rhodobacter capsulatus at 2.2 A==
-
The line below this paragraph, containing "STRUCTURE_2wc1", creates the "Structure Box" on the page.
+
<StructureSection load='2wc1' size='340' side='right'caption='[[2wc1]], [[Resolution|resolution]] 2.17&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'>[[2wc1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodobacter_capsulatus Rhodobacter capsulatus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WC1 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]] 2.17&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene></td></tr>
-
{{STRUCTURE_2wc1| PDB=2wc1 | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2wc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wc1 OCA], [https://pdbe.org/2wc1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wc1 RCSB], [https://www.ebi.ac.uk/pdbsum/2wc1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wc1 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/FLAV_RHOCB FLAV_RHOCB] Low-potential electron donor to a number of redox enzymes. NifF is the electron donor to nitrogenase.
 +
== 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/wc/2wc1_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=2wc1 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Analysis of the crystal structure of NifF from Rhodobacter capsulatus and its homologues reported so far reflects the existence of unique structural features in nif flavodoxins: a leucine at the re face of the isoalloxazine, an eight-residue insertion at the C-terminus of the 50's loop and a remarkable difference in the electrostatic potential surface with respect to non-nif flavodoxins. A phylogenetic study on 64 sequences from 52 bacterial species revealed four clusters, including different functional prototypes, correlating the previously defined as "short-chain" with the firmicutes flavodoxins and the "long-chain" with gram-negative species. The comparison of Rhodobacter NifF structure with other bacterial flavodoxin prototypes discloses the concurrence of specific features of these functional electron donors to nitrogenase.
-
===THREE-DIMENSIONAL STRUCTURE OF THE NITROGEN FIXATION FLAVODOXIN (NIFF) FROM RHODOBACTER CAPSULATUS AT 2.2 A===
+
Structural and Phylogenetic Analysis of Rhodobacter capsulatus NifF: Uncovering General Features of Nitrogen-fixation (nif)-Flavodoxins.,Perez-Dorado I, Bortolotti A, Cortez N, Hermoso JA Int J Mol Sci. 2013 Jan 9;14(1):1152-63. doi: 10.3390/ijms14011152. PMID:23303276<ref>PMID:23303276</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_18453705}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 2wc1" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 18453705 is the PubMed ID number.
+
-
-->
+
-
{{ABSTRACT_PUBMED_18453705}}
+
-
 
+
-
==About this Structure==
+
-
[[2wc1]] is a 1 chain structure of [[Flavodoxin]] with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_capsulatus Rhodobacter capsulatus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WC1 OCA].
+
==See Also==
==See Also==
-
*[[Flavodoxin]]
+
*[[Flavodoxin 3D structures|Flavodoxin 3D structures]]
-
 
+
== References ==
-
==Reference==
+
<references/>
-
<ref group="xtra">PMID:18453705</ref><ref group="xtra">PMID:16128574</ref><ref group="xtra">PMID:14572660</ref><ref group="xtra">PMID:9711296</ref><ref group="xtra">PMID:8682802</ref><ref group="xtra">PMID:8226618</ref><references group="xtra"/>
+
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Rhodobacter capsulatus]]
[[Category: Rhodobacter capsulatus]]
-
[[Category: Bittel, C.]]
+
[[Category: Bittel C]]
-
[[Category: Carrillo, N.]]
+
[[Category: Carrillo N]]
-
[[Category: Cortez, N.]]
+
[[Category: Cortez N]]
-
[[Category: Hermoso, J A.]]
+
[[Category: Hermoso JA]]
-
[[Category: Perez-Dorado, I.]]
+
[[Category: Perez-Dorado I]]
-
[[Category: Electron transport]]
+
-
[[Category: Flavoprotein]]
+

Current revision

Three-dimensional Structure of the Nitrogen Fixation Flavodoxin (NifF) from Rhodobacter capsulatus at 2.2 A

PDB ID 2wc1

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2wc1"
Personal tools