1t6c: Difference between revisions

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[[Image:1t6c.jpg|left|200px]]


{{Structure
==Structural characterization of the Ppx/GppA protein family: crystal structure of the Aquifex aeolicus family member==
|PDB= 1t6c |SIZE=350|CAPTION= <scene name='initialview01'>1t6c</scene>, resolution 1.53&Aring;
<StructureSection load='1t6c' size='340' side='right'caption='[[1t6c]], [[Resolution|resolution]] 1.53&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>
<table><tr><td colspan='2'>[[1t6c]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aquifex_aeolicus_VF5 Aquifex aeolicus VF5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T6C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T6C FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.53&#8491;</td></tr>
|GENE= ppx ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224324 Aquifex aeolicus VF5])
<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=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t6c OCA], [https://pdbe.org/1t6c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t6c RCSB], [https://www.ebi.ac.uk/pdbsum/1t6c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t6c ProSAT]</span></td></tr>
|RELATEDENTRY=[[1t6d|1T6D]]
</table>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t6c OCA], [http://www.ebi.ac.uk/pdbsum/1t6c PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1t6c RCSB]</span>
== Function ==
}}
[https://www.uniprot.org/uniprot/O67040_AQUAE O67040_AQUAE]
 
== Evolutionary Conservation ==
'''Structural characterization of the Ppx/GppA protein family: crystal structure of the Aquifex aeolicus family member'''
[[Image:Consurf_key_small.gif|200px|right]]
 
Check<jmol>
 
  <jmolCheckbox>
==Overview==
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/t6/1t6c_consurf.spt"</scriptWhenChecked>
Exopolyphosphatase/guanosine pentaphosphate phosphohydrolase (PPX/GPPA) enzymes play central roles in the bacterial stringent response induced by starvation. The high-resolution crystal structure of the putative Aquifex aeolicus PPX/GPPA phosphatase from the actin-like ATPase domain superfamily has been determined, providing the first insights to features of the common catalytic core of the PPX/GPPA family. The protein has a two-domain structure with an active site located in the interdomain cleft. Two crystal forms were investigated (type I and II) at resolutions of 1.53 and 2.15 A, respectively. This revealed a structural flexibility that has previously been described as a "butterfly-like" cleft opening around the active site in other actin-like superfamily proteins. A calcium ion is observed at the center of this region in type I crystals, substantiating that PPX/GPPA enzymes use metal ions for catalysis. Structural analysis suggests that nucleotides bind at a similar position to that seen in other members of the superfamily.
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 
    <text>to colour the structure by Evolutionary Conservation</text>
==About this Structure==
  </jmolCheckbox>
1T6C is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus_vf5 Aquifex aeolicus vf5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T6C OCA].  
</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=1t6c ConSurf].
 
<div style="clear:both"></div>
==Reference==
__TOC__
Structural characterization of the stringent response related exopolyphosphatase/guanosine pentaphosphate phosphohydrolase protein family., Kristensen O, Laurberg M, Liljas A, Kastrup JS, Gajhede M, Biochemistry. 2004 Jul 20;43(28):8894-900. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15248747 15248747]
</StructureSection>
[[Category: Aquifex aeolicus vf5]]
[[Category: Aquifex aeolicus VF5]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Gajhede, M.]]
[[Category: Gajhede M]]
[[Category: Kastrup, J S.]]
[[Category: Kastrup JS]]
[[Category: Kristensen, O.]]
[[Category: Kristensen O]]
[[Category: Laurberg, M.]]
[[Category: Laurberg M]]
[[Category: Liljas, A.]]
[[Category: Liljas A]]
[[Category: actin-like fold]]
[[Category: alpha/beta protein]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:52:00 2008''

Latest revision as of 16:30, 13 March 2024

Structural characterization of the Ppx/GppA protein family: crystal structure of the Aquifex aeolicus family memberStructural characterization of the Ppx/GppA protein family: crystal structure of the Aquifex aeolicus family member

Structural highlights

1t6c is a 1 chain structure with sequence from Aquifex aeolicus VF5. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.53Å
Ligands:, , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

O67040_AQUAE

Evolutionary Conservation

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

1t6c, resolution 1.53Å

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

OCA
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