2epo: Difference between revisions

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[[Image:2epo.jpg|left|200px]]


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==N-acetyl-B-D-glucosaminidase (GCNA) from Streptococcus gordonii==
The line below this paragraph, containing "STRUCTURE_2epo", creates the "Structure Box" on the page.
<StructureSection load='2epo' size='340' side='right'caption='[[2epo]], [[Resolution|resolution]] 1.56&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'>[[2epo]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_gordonii Streptococcus gordonii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EPO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EPO 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]] 1.56&#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=ACY:ACETIC+ACID'>ACY</scene></td></tr>
{{STRUCTURE_2epo|  PDB=2epo  |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2epo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2epo OCA], [https://pdbe.org/2epo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2epo RCSB], [https://www.ebi.ac.uk/pdbsum/2epo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2epo ProSAT]</span></td></tr>
 
</table>
'''N-acetyl-B-D-glucosaminidase (GCNA) from Streptococcus gordonii'''
== Function ==
 
[https://www.uniprot.org/uniprot/Q6ST21_STRGN Q6ST21_STRGN]
 
== Evolutionary Conservation ==
==Overview==
[[Image:Consurf_key_small.gif|200px|right]]
The crystal structure of GcnA, an N-acetyl-beta-D-glucosaminidase from Streptococcus gordonii, was solved by multiple wavelength anomalous dispersion phasing using crystals of selenomethionine-substituted protein. GcnA is a homodimer with subunits each comprised of three domains. The structure of the C-terminal alpha-helical domain has not been observed previously and forms a large dimerisation interface. The fold of the N-terminal domain is observed in all structurally related glycosidases although its function is unknown. The central domain has a canonical (beta/alpha)(8) TIM-barrel fold which harbours the active site. The primary sequence and structure of this central domain identifies the enzyme as a family 20 glycosidase. Key residues implicated in catalysis have different conformations in two different crystal forms, which probably represent active and inactive conformations of the enzyme. The catalytic mechanism for this class of glycoside hydrolase, where the substrate rather than the enzyme provides the cleavage-inducing nucleophile, has been confirmed by the structure of GcnA complexed with a putative reaction intermediate analogue, N-acetyl-beta-D-glucosamine-thiazoline. The catalytic mechanism is discussed in light of these and other family 20 structures.
Check<jmol>
 
  <jmolCheckbox>
==About this Structure==
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ep/2epo_consurf.spt"</scriptWhenChecked>
2EPO is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Streptococcus_gordonii Streptococcus gordonii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EPO OCA].  
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 
    <text>to colour the structure by Evolutionary Conservation</text>
==Reference==
  </jmolCheckbox>
Structure of N-acetyl-beta-D-glucosaminidase (GcnA) from the endocarditis pathogen Streptococcus gordonii and its complex with the mechanism-based inhibitor NAG-thiazoline., Langley DB, Harty DW, Jacques NA, Hunter N, Guss JM, Collyer CA, J Mol Biol. 2008 Mar 14;377(1):104-16. Epub 2007 Sep 16. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18237743 18237743]
</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=2epo ConSurf].
[[Category: Beta-N-acetylhexosaminidase]]
<div style="clear:both"></div>
[[Category: Single protein]]
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Streptococcus gordonii]]
[[Category: Streptococcus gordonii]]
[[Category: Langley, D B.]]
[[Category: Langley DB]]
[[Category: Family 20]]
[[Category: Gcna]]
[[Category: Glucosaminidase]]
[[Category: Glycoside hydrolase]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 02:57:24 2008''

Latest revision as of 16:50, 13 March 2024

N-acetyl-B-D-glucosaminidase (GCNA) from Streptococcus gordoniiN-acetyl-B-D-glucosaminidase (GCNA) from Streptococcus gordonii

Structural highlights

2epo is a 2 chain structure with sequence from Streptococcus gordonii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.56Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q6ST21_STRGN

Evolutionary Conservation

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

2epo, resolution 1.56Å

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