2g4j: Difference between revisions

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New page: left|200px<br /><applet load="2g4j" size="450" color="white" frame="true" align="right" spinBox="true" caption="2g4j, resolution 1.85Å" /> '''Anomalous substructu...
 
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[[Image:2g4j.gif|left|200px]]<br /><applet load="2g4j" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2g4j, resolution 1.85&Aring;" />
'''Anomalous substructure of Glucose isomerase'''<br />


==Overview==
==Anomalous substructure of Glucose isomerase==
23 different crystal forms of 19 different biological macromolecules were, examined with respect to their anomalously scattering substructures using, diffraction data collected at a wavelength of 2.0 A (6.2 keV). In more, than 90% of the cases the substructure was found to contain more than just, the protein S atoms. The data presented suggest that chloride, sulfate, phosphate or metal ions from the buffer or even from the purification, protocol are frequently bound to the protein molecule and that these ions, are often overlooked, especially if they are not bound at full occupancy., Thus, in order to fully describe the macromolecule under study, it seems, desirable that any structure determination be complemented with a, long-wavelength data set.
<StructureSection load='2g4j' size='340' side='right'caption='[[2g4j]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2g4j]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_rubiginosus Streptomyces rubiginosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2G4J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2G4J 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]] 1.85&#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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=2g4j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2g4j OCA], [https://pdbe.org/2g4j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2g4j RCSB], [https://www.ebi.ac.uk/pdbsum/2g4j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2g4j ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/XYLA_STRRU XYLA_STRRU] Involved in D-xylose catabolism.
== 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/g4/2g4j_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=2g4j ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
2G4J is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Streptomyces_rubiginosus Streptomyces rubiginosus] with CA, MG and CL as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2G4J OCA].
*[[D-xylose isomerase 3D structures|D-xylose isomerase 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
On the routine use of soft X-rays in macromolecular crystallography. Part IV. Efficient determination of anomalous substructures in biomacromolecules using longer X-ray wavelengths., Mueller-Dieckmann C, Panjikar S, Schmidt A, Mueller S, Kuper J, Geerlof A, Wilmanns M, Singh RK, Tucker PA, Weiss MS, Acta Crystallogr D Biol Crystallogr. 2007 Mar;63(Pt 3):366-80. Epub 2007, Feb 21. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17327674 17327674]
[[Category: Large Structures]]
[[Category: Single protein]]
[[Category: Streptomyces rubiginosus]]
[[Category: Streptomyces rubiginosus]]
[[Category: Xylose isomerase]]
[[Category: Mueller-Dieckmann C]]
[[Category: Mueller-Dieckmann, C.]]
[[Category: Weiss MS]]
[[Category: Weiss, M.S.]]
[[Category: CA]]
[[Category: CL]]
[[Category: MG]]
[[Category: anomalous substructure of glucose isomerase]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 10:56:31 2007''

Latest revision as of 12:26, 14 February 2024

Anomalous substructure of Glucose isomeraseAnomalous substructure of Glucose isomerase

Structural highlights

2g4j is a 1 chain structure with sequence from Streptomyces rubiginosus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.85Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

XYLA_STRRU Involved in D-xylose catabolism.

Evolutionary Conservation

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

See Also

2g4j, resolution 1.85Å

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