2zgi: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
 
(11 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{Seed}}
[[Image:2zgi.jpg|left|200px]]


<!--
==Crystal Structure of Putative 4-amino-4-deoxychorismate lyase==
The line below this paragraph, containing "STRUCTURE_2zgi", creates the "Structure Box" on the page.
<StructureSection load='2zgi' size='340' side='right'caption='[[2zgi]], [[Resolution|resolution]] 1.93&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'>[[2zgi]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZGI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZGI 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]] 1.93&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
{{STRUCTURE_2zgi|  PDB=2zgi  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2zgi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zgi OCA], [https://pdbe.org/2zgi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zgi RCSB], [https://www.ebi.ac.uk/pdbsum/2zgi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zgi ProSAT], [https://www.topsan.org/Proteins/RSGI/2zgi TOPSAN]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q5SKM2_THET8 Q5SKM2_THET8]
== 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/zg/2zgi_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2zgi ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The pyridoxal 5'-phosphate-dependent enzyme 4-amino-4-deoxychorismate lyase converts 4-amino-4-deoxychorismate to p-aminobenzoate and pyruvate in one of the crucial steps in the folate-biosynthesis pathway. The primary structure of the hypothetical protein TTHA0621 from Thermus thermophilus HB8 suggests that TTHA0621 is a putative 4-amino-4-deoxychorismate lyase. Here, the crystal structure of TTHA0621 is reported at 1.93 A resolution. The asymmetric unit contained four NCS molecules related by 222 noncrystallographic symmetry, in which the formation of intact dimers may be functionally important. The cofactor pyridoxal 5'-phosphate (PLP) binds to the protein in the large cleft formed by the N-terminal and C-terminal domains of TTHA0621. The high structural similarity and the conservation of the functional residues in the catalytic region compared with 4-amino-4-deoxychorismate lyase (PabC; EC 4.1.3.38) from Escherichia coli suggest that the TTHA0621 protein may also possess 4-amino-4-deoxychorismate lyase activity.


===Crystal Structure of Putative 4-amino-4-deoxychorismate lyase===
Structure of putative 4-amino-4-deoxychorismate lyase from Thermus thermophilus HB8.,Padmanabhan B, Bessho Y, Ebihara A, Antonyuk SV, Ellis MJ, Strange RW, Kuramitsu S, Watanabe N, Hasnain SS, Yokoyama S Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Dec 1;65(Pt, 12):1234-9. Epub 2009 Nov 27. PMID:20054118<ref>PMID:20054118</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
2ZGI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZGI OCA].
<div class="pdbe-citations 2zgi" style="background-color:#fffaf0;"></div>
[[Category: Single protein]]
== References ==
[[Category: Thermus thermophilus]]
<references/>
[[Category: Bessho, Y.]]
__TOC__
[[Category: Padmanabhan, B.]]
</StructureSection>
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
[[Category: Large Structures]]
[[Category: Yokoyama, S.]]
[[Category: Thermus thermophilus HB8]]
[[Category: Lyase]]
[[Category: Bessho Y]]
[[Category: National project on protein structural and functional analyse]]
[[Category: Padmanabhan B]]
[[Category: Nppsfa]]
[[Category: Yokoyama S]]
[[Category: Plp cofactor]]
[[Category: Pyridoxal enzyme]]
[[Category: Riken structural genomics/proteomics initiative]]
[[Category: Rsgi]]
[[Category: Structural genomic]]
[[Category: Ttha0621]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 23 11:44:23 2008''
Retrieved from "https://proteopedia.org/2zgi"