3dl9: Difference between revisions

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[[Image:3dl9.jpg|left|200px]]


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==Crystal structure of CYP2R1 in complex with 1-alpha-hydroxy-vitamin D2==
The line below this paragraph, containing "STRUCTURE_3dl9", creates the "Structure Box" on the page.
<StructureSection load='3dl9' size='340' side='right'caption='[[3dl9]], [[Resolution|resolution]] 2.72&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'>[[3dl9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DL9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DL9 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]] 2.721&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=PRD_900012:beta-cyclodextrin'>PRD_900012</scene>, <scene name='pdbligand=V2H:(1S,3R,5Z,7E,22E)-9,10-SECOERGOSTA-5,7,10,22-TETRAENE-1,3-DIOL'>V2H</scene></td></tr>
{{STRUCTURE_3dl9| PDB=3dl9 |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dl9 OCA], [https://pdbe.org/3dl9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dl9 RCSB], [https://www.ebi.ac.uk/pdbsum/3dl9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dl9 ProSAT]</span></td></tr>
</table>
== Disease ==
[https://www.uniprot.org/uniprot/CP2R1_HUMAN CP2R1_HUMAN] Defects in CYP2R1 are the cause of rickets vitamin D-dependent type 1B (VDDR1B) [MIM:[https://omim.org/entry/600081 600081]; also known as pseudovitamin D(3) deficiency rickets due to 25-hydroxylase deficiency. A disorder caused by a selective deficiency of the active form of vitamin D (1,25-dihydroxyvitamin D3) and resulting in defective bone mineralization and clinical features of rickets. The patients sera have low calcium concentrations, low phosphate concentrations, elevated alkaline phosphatase activityand low levels of 25-hydroxyvitamin D.<ref>PMID:15128933</ref>
== Function ==
[https://www.uniprot.org/uniprot/CP2R1_HUMAN CP2R1_HUMAN] Has a D-25-hydroxylase activity on both forms of vitamin D, vitamin D(2) and D(3).<ref>PMID:12867411</ref> <ref>PMID:15465040</ref> <ref>PMID:18511070</ref>  
== 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/dl/3dl9_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=3dl9 ConSurf].
<div style="clear:both"></div>


===Crystal structure of CYP2R1 in complex with 1-alpha-hydroxy-vitamin D2===
==See Also==
 
*[[Cytochrome P450 3D structures|Cytochrome P450 3D structures]]
 
== References ==
==Disease==
<references/>
Known disease associated with this structure: Rickets due to defect in vitamin D 25-hydroxylation OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=608713 608713]]
__TOC__
 
</StructureSection>
==About this Structure==
3DL9 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DL9 OCA].
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Arrowsmith, C H.]]
[[Category: Arrowsmith CH]]
[[Category: Bochkarev, A.]]
[[Category: Bochkarev A]]
[[Category: Bountra, C.]]
[[Category: Bountra C]]
[[Category: Edwards, A M.]]
[[Category: Edwards AM]]
[[Category: Gilep, A A.]]
[[Category: Gilep AA]]
[[Category: Loppnau, P.]]
[[Category: Loppnau P]]
[[Category: Park, H.]]
[[Category: Park H]]
[[Category: SGC, Structural Genomics Consortium.]]
[[Category: Strushkevich NV]]
[[Category: Strushkevich, N V.]]
[[Category: Tempel W]]
[[Category: Tempel, W.]]
[[Category: Wilkstrom M]]
[[Category: Wilkstrom, M.]]
[[Category: Cytochrome p450]]
[[Category: Disease mutation]]
[[Category: Drug metabolism]]
[[Category: Endoplasmic reticulum]]
[[Category: Heme]]
[[Category: Iron]]
[[Category: Membrane]]
[[Category: Metal-binding]]
[[Category: Microsome]]
[[Category: Monooxygenase]]
[[Category: Oxidoreductase]]
[[Category: Sgc]]
[[Category: Structural genomic]]
[[Category: Structural genomics consortium]]
[[Category: Vitamin d]]
[[Category: Vitamin s 25-hydroxylase]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug  6 13:06:36 2008''

Latest revision as of 15:48, 30 August 2023

Crystal structure of CYP2R1 in complex with 1-alpha-hydroxy-vitamin D2Crystal structure of CYP2R1 in complex with 1-alpha-hydroxy-vitamin D2

Structural highlights

3dl9 is a 2 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.721Å
Ligands:, , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Disease

CP2R1_HUMAN Defects in CYP2R1 are the cause of rickets vitamin D-dependent type 1B (VDDR1B) [MIM:600081; also known as pseudovitamin D(3) deficiency rickets due to 25-hydroxylase deficiency. A disorder caused by a selective deficiency of the active form of vitamin D (1,25-dihydroxyvitamin D3) and resulting in defective bone mineralization and clinical features of rickets. The patients sera have low calcium concentrations, low phosphate concentrations, elevated alkaline phosphatase activityand low levels of 25-hydroxyvitamin D.[1]

Function

CP2R1_HUMAN Has a D-25-hydroxylase activity on both forms of vitamin D, vitamin D(2) and D(3).[2] [3] [4]

Evolutionary Conservation

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

See Also

References

  1. ↑ Cheng JB, Levine MA, Bell NH, Mangelsdorf DJ, Russell DW. Genetic evidence that the human CYP2R1 enzyme is a key vitamin D 25-hydroxylase. Proc Natl Acad Sci U S A. 2004 May 18;101(20):7711-5. Epub 2004 May 5. PMID:15128933 doi:10.1073/pnas.0402490101
  2. ↑ Cheng JB, Motola DL, Mangelsdorf DJ, Russell DW. De-orphanization of cytochrome P450 2R1: a microsomal vitamin D 25-hydroxilase. J Biol Chem. 2003 Sep 26;278(39):38084-93. Epub 2003 Jul 16. PMID:12867411 doi:10.1074/jbc.M307028200
  3. ↑ Shinkyo R, Sakaki T, Kamakura M, Ohta M, Inouye K. Metabolism of vitamin D by human microsomal CYP2R1. Biochem Biophys Res Commun. 2004 Nov 5;324(1):451-7. PMID:15465040 doi:S0006-291X(04)02115-1
  4. ↑ Strushkevich N, Usanov SA, Plotnikov AN, Jones G, Park HW. Structural analysis of CYP2R1 in complex with vitamin D3. J Mol Biol. 2008 Jun 27;380(1):95-106. Epub 2008 Apr 8. PMID:18511070 doi:10.1016/j.jmb.2008.03.065

3dl9, resolution 2.72Å

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