1d7h: Difference between revisions

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New page: left|200px<br /> <applet load="1d7h" size="450" color="white" frame="true" align="right" spinBox="true" caption="1d7h, resolution 1.90Å" /> '''FKBP COMPLEXED WITH...
 
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[[Image:1d7h.gif|left|200px]]<br />
<applet load="1d7h" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1d7h, resolution 1.90&Aring;" />
'''FKBP COMPLEXED WITH DMSO'''<br />


==Overview==
==FKBP COMPLEXED WITH DMSO==
A new crystal form of native FK506 binding protein (FKBP) has been, obtained which has proved useful in ligand binding studies. Three, different small molecule ligand complexes and the native enzyme have been, determined at higher resolution than 2.0 A. Dissociation constants of the, related small molecule ligands vary from 20 mM for dimethylsulphoxide to, 200 microM for tetrahydrothiophene 1-oxide. Comparison of the four, available crystal structures shows that the protein structures are, identical to within experimental error, but there are differences in the, water structure in the active site. Analysis of the calculated buried, surface areas of these related ligands provides an estimated van der Waals, contribution to the binding energy of -0.5 kJ/A(2) for non-polar, interactions between ligand and protein.
<StructureSection load='1d7h' size='340' side='right'caption='[[1d7h]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1d7h]] 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=1D7H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D7H FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1d7h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d7h OCA], [https://pdbe.org/1d7h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d7h RCSB], [https://www.ebi.ac.uk/pdbsum/1d7h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d7h ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/FKB1A_HUMAN FKB1A_HUMAN] Keeps in an inactive conformation TGFBR1, the TGF-beta type I serine/threonine kinase receptor, preventing TGF-beta receptor activation in absence of ligand. Recruites SMAD7 to ACVR1B which prevents the association of SMAD2 and SMAD3 with the activin receptor complex, thereby blocking the activin signal. May modulate the RYR1 calcium channel activity. PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.<ref>PMID:9233797</ref> <ref>PMID:16720724</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/d7/1d7h_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=1d7h ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1D7H is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with NH4, SO4 and DMS as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1D7H OCA].
*[[FKBP 3D structures|FKBP 3D structures]]
 
== References ==
==Reference==
<references/>
X-ray structures of small ligand-FKBP complexes provide an estimate for hydrophobic interaction energies., Burkhard P, Taylor P, Walkinshaw MD, J Mol Biol. 2000 Jan 28;295(4):953-62. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10656803 10656803]
__TOC__
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Peptidylprolyl isomerase]]
[[Category: Large Structures]]
[[Category: Single protein]]
[[Category: Burkhard P]]
[[Category: Burkhard, P.]]
[[Category: Taylor P]]
[[Category: Taylor, P.]]
[[Category: Walkinshaw MD]]
[[Category: Walkinshaw, M.D.]]
[[Category: DMS]]
[[Category: NH4]]
[[Category: SO4]]
[[Category: dmso]]
[[Category: fkbp]]
[[Category: immunophilin]]
[[Category: isomerase]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 16:29:52 2007''

Latest revision as of 09:50, 7 February 2024

FKBP COMPLEXED WITH DMSOFKBP COMPLEXED WITH DMSO

Structural highlights

1d7h 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 1.9Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

FKB1A_HUMAN Keeps in an inactive conformation TGFBR1, the TGF-beta type I serine/threonine kinase receptor, preventing TGF-beta receptor activation in absence of ligand. Recruites SMAD7 to ACVR1B which prevents the association of SMAD2 and SMAD3 with the activin receptor complex, thereby blocking the activin signal. May modulate the RYR1 calcium channel activity. PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.[1] [2]

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. ↑ Chen YG, Liu F, Massague J. Mechanism of TGFbeta receptor inhibition by FKBP12. EMBO J. 1997 Jul 1;16(13):3866-76. PMID:9233797 doi:10.1093/emboj/16.13.3866
  2. ↑ Yamaguchi T, Kurisaki A, Yamakawa N, Minakuchi K, Sugino H. FKBP12 functions as an adaptor of the Smad7-Smurf1 complex on activin type I receptor. J Mol Endocrinol. 2006 Jun;36(3):569-79. PMID:16720724 doi:10.1677/jme.1.01966

1d7h, resolution 1.90Å

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