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1mny

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Revision as of 10:15, 25 October 2017

Dimethyl propionate ester heme-containing cytochrome b5

Structural highlights

1mny is a 1 chain structure with sequence from Buffalo rat. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	1aqa, 1aw3, 1blv
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[CYB5_RAT] Cytochrome b5 is a membrane bound hemoprotein which function as an electron carrier for several membrane bound oxygenases. It is also involved in several steps of the sterol biosynthesis pathway, particularly in the C-6 double bond introduction during the C-6 desaturation.

Evolutionary Conservation

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

Publication Abstract from PubMed

A derivative of rat microsomal cytochrome b5, obtained by substitution of the native heme moiety with protoporphyrin IX dimethyl ester, has been characterized by 1H and 15N NMR spectroscopy. Besides the two usual A and B forms, which depend on the orientation of the heme in the prostethic group cavity, two other minor forms have been detected which presumably indicate different conformations of the vinyl side chains. The shifts of the heme methyls, as well as the directions of the rhombic axes of the magnetic susceptibility tensor, indicate a small difference in the orientation of the imidazole planes of the histidine axial ligands. The solution structure was determined by using 1,303 meaningful NOEs and 241 pseudocontact shifts, the latter being derived from the native reduced protein. A family of 40 energy-minimized conformers was obtained with average RMSD of 0.56+/-0.09 A and 1.04+/-0.12 A for backbone and heavy atoms, respectively, and distance and pseudocontact shift penalty functions of 0.50+/-0.07 A2 and 0.51+/-0.02 ppm2. The structure shows some changes around the cavity and in particular a movement of the 60-70 backbone segment owing to the absence of two hydrogen bonds between the Ser64 backbone NH and side-chain OH and the carboxylate oxygen of propionate-7, present in the native protein. The analysis of the NMR spectra in the presence of unfolding agents indicates that this protein is less stable than the native form. The decrease in stability may be the result of the loss of the two hydrogen bonds connecting propionate-7 to Ser64 in the native protein. The available data on the reduction potential and the electron transfer rates are discussed on the basis of the present structural data.

Dimethyl propionate ester heme-containing cytochrome b5: structure and stability.,Banci L, Bertini I, Branchini BR, Hajieva P, Spyroulias GA, Turano P J Biol Inorg Chem. 2001 Jun;6(5-6):490-503. PMID:11472013^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Banci L, Bertini I, Branchini BR, Hajieva P, Spyroulias GA, Turano P. Dimethyl propionate ester heme-containing cytochrome b5: structure and stability. J Biol Inorg Chem. 2001 Jun;6(5-6):490-503. PMID:11472013

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1mny"

@@ Line 1: / Line 1: @@
 ==Dimethyl propionate ester heme-containing cytochrome b5==
 <StructureSection load='1mny' size='340' side='right' caption='[[1mny]], [[NMR_Ensembles_of_Models | 1 NMR models]]' scene=''>
@@ Line 5: / Line 6: @@
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HDM:DIMETHYL+PROPIONATE+ESTER+HEME'>HDM</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1aqa|1aqa]], [[1aw3|1aw3]], [[1blv|1blv]]</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1mny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mny OCA], [http://pdbe.org/1mny PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mny RCSB], [http://www.ebi.ac.uk/pdbsum/1mny PDBsum]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1mny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mny OCA], [http://pdbe.org/1mny PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mny RCSB], [http://www.ebi.ac.uk/pdbsum/1mny PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1mny ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 17: / Line 18: @@
     <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/chain_selection.php?pdb_ID=2ata 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=1mny ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 28: / Line 29: @@
 </div>
 <div class="pdbe-citations 1mny" style="background-color:#fffaf0;"></div>
-==See Also==
-*[[Cytochrome b5|Cytochrome b5]]
 == References ==
 <references/>

1mny

From Proteopedia

Revision as of 10:15, 25 October 2017

Dimethyl propionate ester heme-containing cytochrome b5

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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