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.


1rdg

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:22, 1 May 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:1rdg.png|left|200px]]
 
-
<!--
+
==RUBREDOXIN FROM DESULFOVIBRIO GIGAS. A MOLECULAR MODEL OF THE OXIDIZED FORM AT 1.4 ANGSTROMS RESOLUTION==
-
The line below this paragraph, containing "STRUCTURE_1rdg", creates the "Structure Box" on the page.
+
<StructureSection load='1rdg' size='340' side='right'caption='[[1rdg]], [[Resolution|resolution]] 1.40&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'>[[1rdg]] 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=1RDG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RDG 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]] 1.4&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FOR:FORMYL+GROUP'>FOR</scene></td></tr>
-
{{STRUCTURE_1rdg| PDB=1rdg | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1rdg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rdg OCA], [https://pdbe.org/1rdg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rdg RCSB], [https://www.ebi.ac.uk/pdbsum/1rdg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rdg ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/RUBR_MEGGA RUBR_MEGGA] Rubredoxin is a small nonheme, iron protein lacking acid-labile sulfide. Its single Fe, chelated to 4 Cys, functions as an electron acceptor and may also stabilize the conformation of the molecule. Electron acceptor for cytoplasmic lactate dehydrogenase.
 +
== 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/rd/1rdg_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=1rdg ConSurf].
 +
<div style="clear:both"></div>
-
===RUBREDOXIN FROM DESULFOVIBRIO GIGAS. A MOLECULAR MODEL OF THE OXIDIZED FORM AT 1.4 ANGSTROMS RESOLUTION===
+
==See Also==
-
 
+
*[[Rubredoxin 3D structures|Rubredoxin 3D structures]]
-
 
+
*[[Rubredoxin PDB structures|Rubredoxin PDB structures]]
-
<!--
+
__TOC__
-
The line below this paragraph, {{ABSTRACT_PUBMED_3441010}}, adds the Publication Abstract to the page
+
</StructureSection>
-
(as it appears on PubMed at http://www.pubmed.gov), where 3441010 is the PubMed ID number.
+
[[Category: Large Structures]]
-
-->
+
[[Category: Megalodesulfovibrio gigas]]
-
{{ABSTRACT_PUBMED_3441010}}
+
[[Category: Frey M]]
-
 
+
[[Category: Payan F]]
-
==About this Structure==
+
[[Category: Sieker LC]]
-
1RDG 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=1RDG OCA].
+
-
 
+
-
==Reference==
+
-
Rubredoxin from Desulfovibrio gigas. A molecular model of the oxidized form at 1.4 A resolution., Frey M, Sieker L, Payan F, Haser R, Bruschi M, Pepe G, LeGall J, J Mol Biol. 1987 Oct 5;197(3):525-41. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/3441010 3441010]
+
-
[[Category: Desulfovibrio gigas]]
+
-
[[Category: Single protein]]
+
-
[[Category: Frey, M.]]
+
-
[[Category: Payan, F.]]
+
-
[[Category: Sieker, L C.]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 13:50:19 2008''
+

Current revision

RUBREDOXIN FROM DESULFOVIBRIO GIGAS. A MOLECULAR MODEL OF THE OXIDIZED FORM AT 1.4 ANGSTROMS RESOLUTION

PDB ID 1rdg

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/1rdg"
Personal tools