1nub: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
New page: left|200px<br /> <applet load="1nub" size="450" color="white" frame="true" align="right" spinBox="true" caption="1nub, resolution 2.80Å" /> '''HELIX C DELETION MU...
 
No edit summary
 
(15 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1nub.gif|left|200px]]<br />
<applet load="1nub" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1nub, resolution 2.80&Aring;" />
'''HELIX C DELETION MUTANT OF BM-40 FS-EC DOMAIN PAIR'''<br />


==Overview==
==HELIX C DELETION MUTANT OF BM-40 FS-EC DOMAIN PAIR==
The extracellular calcium-binding domain (positions 138-286) of the matrix, protein BM-40 possesses a binding epitope of moderate affinity for several, collagen types. This epitope was predicted to reside in helix alphaA and, to be partially masked by helix alphaC. Here we show that deletion of, helix alphaC produces a 10-fold increase in collagen affinity similar to, that seen after proteolytic cleavage of this helix. The predicted removal, of the steric constraint was clearly demonstrated by the crystal structure, of the mutant at 2.8 A resolution. This constitutively activated mutant, was used to map the collagen-binding site following alanine mutagenesis at, 13 positions. Five residues were crucial for binding, R149 and N156 in, helix alphaA, and L242, M245 and E246 in a loop region connecting the two, EF hands of BM-40. These residues are spatially close and form a flat ring, of 15 A diameter which matches the diameter of a triple-helical collagen, domain. The mutations showed similar effects on binding to collagens I and, IV, indicating nearly identical binding sites on both collagens. Selected, mutations in the non-activated mutant DeltaI also reduced collagen, binding, consistent with the same location of the epitope but in a more, cryptic form in intact BM-40.
<StructureSection load='1nub' size='340' side='right'caption='[[1nub]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1nub]] 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=1NUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NUB FirstGlance]. <br>
1NUB 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 CA as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NUB 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]] 2.8&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=1nub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nub OCA], [https://pdbe.org/1nub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nub RCSB], [https://www.ebi.ac.uk/pdbsum/1nub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nub ProSAT]</span></td></tr>
Crystal structure and mapping by site-directed mutagenesis of the collagen-binding epitope of an activated form of BM-40/SPARC/osteonectin., Sasaki T, Hohenester E, Gohring W, Timpl R, EMBO J. 1998 Mar 16;17(6):1625-34. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9501084 9501084]
</table>
== Function ==
[https://www.uniprot.org/uniprot/SPRC_HUMAN SPRC_HUMAN] Appears to regulate cell growth through interactions with the extracellular matrix and cytokines. Binds calcium and copper, several types of collagen, albumin, thrombospondin, PDGF and cell membranes. There are two calcium binding sites; an acidic domain that binds 5 to 8 Ca(2+) with a low affinity and an EF-hand loop that binds a Ca(2+) ion with a high affinity.
== 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/nu/1nub_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=1nub ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Hohenester, E.]]
[[Category: Hohenester E]]
[[Category: Sasaki, T.]]
[[Category: Sasaki T]]
[[Category: Timpl, R.]]
[[Category: Timpl R]]
[[Category: CA]]
[[Category: anti-adhesive protein]]
[[Category: collagen binding]]
[[Category: extracellular module]]
[[Category: glycoprotein]]
[[Category: glycosylated protein]]
[[Category: site-directed mutagenesis]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 18:25:30 2007''

Latest revision as of 09:09, 3 April 2024

HELIX C DELETION MUTANT OF BM-40 FS-EC DOMAIN PAIRHELIX C DELETION MUTANT OF BM-40 FS-EC DOMAIN PAIR

Structural highlights

1nub 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 2.8Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SPRC_HUMAN Appears to regulate cell growth through interactions with the extracellular matrix and cytokines. Binds calcium and copper, several types of collagen, albumin, thrombospondin, PDGF and cell membranes. There are two calcium binding sites; an acidic domain that binds 5 to 8 Ca(2+) with a low affinity and an EF-hand loop that binds a Ca(2+) ion with a high affinity.

Evolutionary Conservation

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

1nub, resolution 2.80Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=1nub&oldid=4118099"