1ccr: Difference between revisions

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New page: left|200px<br /><applet load="1ccr" size="450" color="white" frame="true" align="right" spinBox="true" caption="1ccr, resolution 1.5Å" /> '''STRUCTURE OF RICE FER...
 
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[[Image:1ccr.gif|left|200px]]<br /><applet load="1ccr" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1ccr, resolution 1.5&Aring;" />
'''STRUCTURE OF RICE FERRICYTOCHROME C AT 2.0 ANGSTROMS RESOLUTION'''<br />


==Overview==
==STRUCTURE OF RICE FERRICYTOCHROME C AT 2.0 ANGSTROMS RESOLUTION==
The crystal structure of ferricytochrome c from rice embryos has been, solved by X-ray diffraction to a resolution of 2.0 A, applying a single, isomorphous replacement method with anomalous scattering effects. The, initial molecular model was built on a graphics display system and was, refined by the Hendrickson and Konnert method. The R factor was reduced to, 0.25. Rice cytochrome c consists of III amino acid residues. In comparison, with animal cytochromes c, the peptide chain extends for eight residues at, the N-terminal end, which is characteristic for plant cytochromes c. These, additional residues display a collagen-like conformation and an irregular, reverse turn, and are located around the C-terminal alpha-helix on the, surface or the rear side of the molecule. Two hydrogen bonds between the, carbonyl oxygen of the N-terminal acetyl group and O eta of Tyr65, and, between the peptide carbonyl oxygen of Pro-1 and O epsilon 1 of Gln89, are, involved in holding these eight residues on the molecular surface, where, Tyr65 and Gln89 are invariant in plant cytochromes c. Except for the extra, eight residues, the main-chain conformations of both rice and tuna, cytochromes c are essentially identical, though small local conformational, differences are found at residues 24, 25, 56 and 57.
<StructureSection load='1ccr' size='340' side='right'caption='[[1ccr]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1ccr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryza_sativa Oryza sativa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CCR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CCR FirstGlance]. <br>
1CCR is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Oryza_sativa Oryza sativa] with ACE, HEM and TML as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1CCR OCA].
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=M3L:N-TRIMETHYLLYSINE'>M3L</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ccr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ccr OCA], [https://pdbe.org/1ccr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ccr RCSB], [https://www.ebi.ac.uk/pdbsum/1ccr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ccr ProSAT]</span></td></tr>
Structure of rice ferricytochrome c at 2.0 A resolution., Ochi H, Hata Y, Tanaka N, Kakudo M, Sakurai T, Aihara S, Morita Y, J Mol Biol. 1983 May 25;166(3):407-18. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=6304326 6304326]
</table>
== Function ==
[https://www.uniprot.org/uniprot/CYC_ORYSJ CYC_ORYSJ] 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.
== 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/cc/1ccr_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=1ccr ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Oryza sativa]]
[[Category: Oryza sativa]]
[[Category: Single protein]]
[[Category: Aihara S]]
[[Category: Aihara, S.]]
[[Category: Hata Y]]
[[Category: Hata, Y.]]
[[Category: Kakudo M]]
[[Category: Kakudo, M.]]
[[Category: Morita Y]]
[[Category: Morita, Y.]]
[[Category: Ochi H]]
[[Category: Ochi, H.]]
[[Category: Sakurai T]]
[[Category: Sakurai, T.]]
[[Category: Tanaka N]]
[[Category: Tanaka, N.]]
[[Category: ACE]]
[[Category: HEM]]
[[Category: TML]]
[[Category: electron transport(cytochrome)]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 12:21:16 2007''

Latest revision as of 18:39, 13 March 2024

STRUCTURE OF RICE FERRICYTOCHROME C AT 2.0 ANGSTROMS RESOLUTIONSTRUCTURE OF RICE FERRICYTOCHROME C AT 2.0 ANGSTROMS RESOLUTION

Structural highlights

1ccr is a 1 chain structure with sequence from Oryza sativa. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.5Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CYC_ORYSJ 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.

Evolutionary Conservation

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

1ccr, resolution 1.50Å

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OCA
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