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.


1i5t

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:44, 3 April 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1i5t.gif|left|200px]]<br /><applet load="1i5t" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1i5t" />
 
-
'''SOLUTION STRUCTURE OF CYANOFERRICYTOCHROME C'''<br />
 
-
==Overview==
+
==SOLUTION STRUCTURE OF CYANOFERRICYTOCHROME C==
-
The solution structure of cyanoferricytochrome c has been determined using NMR spectroscopy. As a result of including additional constraints derived from pseudocontact shifts, a high-resolution NMR structure was obtained with high accuracy. In order to study the conformational transition between the native protein and its ligand adducts, the present structure was compared with the solution structures of the wild-type cytochrome c and the imidazole-cytochrome c complex. Like the solution structure of imidazole-cytochrome c, the heme crevice is widened by the swinging out of residues 77-85 and a noticeable shift of the 50s helix. However, unlike imidazole, cyanide exerts less significant perturbation on the conformation of the heme cavity, which is revealed by a more compact residue package in the distal pocket. Furthermore, comparison of the solution structure of CN-iso-1Met80Ala cytochrome c with the structure of cyanoferricytochrome c indicated that the binding of cyanide has a different impact on the distal cavity conformation in the two proteins. In addition, the magnetic properties of the present system are discussed and a comprehensive study of the electronic structure of ligand-cytochrome c complexes and the native protein is also described. Electronic supplementary material to this paper can be obtained by using the Springer Link server located at http://dx.doi.org/10.1007/s00775-001-0334-y.
+
<StructureSection load='1i5t' size='340' side='right'caption='[[1i5t]]' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1i5t]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Equus_caballus Equus caballus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I5T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1I5T FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</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=1i5t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i5t OCA], [https://pdbe.org/1i5t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1i5t RCSB], [https://www.ebi.ac.uk/pdbsum/1i5t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1i5t ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/CYC_HORSE CYC_HORSE] Electron carrier protein. The oxidized form of the cytochrome c heme group can accept an electron from the heme group of the cytochrome c1 subunit of cytochrome reductase. Cytochrome c then transfers this electron to the cytochrome oxidase complex, the final protein carrier in the mitochondrial electron-transport chain. Plays a role in apoptosis. Suppression of the anti-apoptotic members or activation of the pro-apoptotic members of the Bcl-2 family leads to altered mitochondrial membrane permeability resulting in release of cytochrome c into the cytosol. Binding of cytochrome c to Apaf-1 triggers the activation of caspase-9, which then accelerates apoptosis by activating other caspases (By similarity).
 +
== 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/i5/1i5t_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=1i5t ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1I5T is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Equus_caballus Equus caballus] with <scene name='pdbligand=CYN:'>CYN</scene> and <scene name='pdbligand=HEC:'>HEC</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I5T OCA].
+
*[[Cytochrome C 3D structures|Cytochrome C 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Solution structure of cyanoferricytochrome c: ligand-controlled conformational flexibility and electronic structure of the heme moiety., Yao Y, Qian C, Ye K, Wang J, Bai Z, Tang W, J Biol Inorg Chem. 2002 Apr;7(4-5):539-47. Epub 2002 Jan 31. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11941512 11941512]
+
[[Category: Equus caballus]]
[[Category: Equus caballus]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Qian, C.]]
+
[[Category: Qian C]]
-
[[Category: Tang, W.]]
+
[[Category: Tang W]]
-
[[Category: Wang, J.]]
+
[[Category: Wang J]]
-
[[Category: Yao, Y.]]
+
[[Category: Yao Y]]
-
[[Category: Ye, K.]]
+
[[Category: Ye K]]
-
[[Category: CYN]]
+
-
[[Category: HEC]]
+
-
[[Category: conformational transition]]
+
-
[[Category: cyanide]]
+
-
[[Category: cytochrome c]]
+
-
[[Category: nmr structure]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:08:17 2008''
+

Current revision

SOLUTION STRUCTURE OF CYANOFERRICYTOCHROME C

PDB ID 1i5t

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/1i5t"
Personal tools