This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1kfi

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:46, 7 February 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1kfi.jpg|left|200px]]
 
-
{{Structure
+
==Crystal Structure of the Exocytosis-Sensitive Phosphoprotein, pp63/Parafusin (phosphoglucomutase) from Paramecium==
-
|PDB= 1kfi |SIZE=350|CAPTION= <scene name='initialview01'>1kfi</scene>, resolution 2.4&Aring;
+
<StructureSection load='1kfi' size='340' side='right'caption='[[1kfi]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>
+
<table><tr><td colspan='2'>[[1kfi]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Paramecium_tetraurelia Paramecium tetraurelia]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KFI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KFI FirstGlance]. <br>
-
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoglucomutase Phosphoglucomutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.2.2 5.4.2.2] </span>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
-
|GENE=
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=1kfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kfi OCA], [https://pdbe.org/1kfi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kfi RCSB], [https://www.ebi.ac.uk/pdbsum/1kfi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kfi ProSAT]</span></td></tr>
-
|RELATEDENTRY=[[1kfq|1KFQ]]
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kfi OCA], [http://www.ebi.ac.uk/pdbsum/1kfi PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1kfi RCSB]</span>
+
== Function ==
-
}}
+
[https://www.uniprot.org/uniprot/PGM1_PARTE PGM1_PARTE] May be involved in membrane fusion in exocytosis.
-
 
+
== Evolutionary Conservation ==
-
'''Crystal Structure of the Exocytosis-Sensitive Phosphoprotein, pp63/Parafusin (phosphoglucomutase) from Paramecium'''
+
[[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/kf/1kfi_consurf.spt"</scriptWhenChecked>
-
During exocytosis of dense-core secretory vesicles (trichocysts) in Paramecium, the protein pp63/parafusin (pp63/pf) is transiently dephosphorylated. We report here the structures of two crystal forms of one isoform of this protein which has a high degree of homology with rabbit phosphoglucomutase, whose structure has been reported. As expected, both proteins possess highly similar structures, showing the same four domains forming two lobes with an active-site crevice in between. The two X-ray structures that we report here were determined after crystallization in the presence of sulfate and tartrate, and show the lobes arranged as a closed and an open conformation, respectively. While both conformations possess a bound divalent cation, only the closed (sulfate-bound) conformation shows bound sulfate ions in the "phosphate-transfer site" near the catalytic serine residue and in the "phosphate-binding site". Comparison with the open form shows that the latter dianion is placed in the centre of three arginine residues, one contributed by subunit II and two by subunit IV, suggesting that it causes a contraction of the arginine triangle, which establishes the observed conformational closure of the lobes. It is therefore likely that the closed conformation forms only when a phosphoryl group is bound to the phosphate-binding site. The previously published structure of rabbit phosphoglucomutase is intermediate between these two conformers. Several of the known reversible phosphorylation sites of pp63/pf-1 are at positions critical for transition between the conformations and for binding of the ligands and thus give hints as to possible roles of pp63/pf-1 in the course of exocytosis.
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==About this Structure==
+
</jmolCheckbox>
-
1KFI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Paramecium_tetraurelia Paramecium tetraurelia]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KFI 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=1kfi ConSurf].
-
 
+
<div style="clear:both"></div>
-
==Reference==
+
__TOC__
-
Crystal structure analysis of the exocytosis-sensitive phosphoprotein, pp63/parafusin (phosphoglucomutase), from Paramecium reveals significant conformational variability., Muller S, Diederichs K, Breed J, Kissmehl R, Hauser K, Plattner H, Welte W, J Mol Biol. 2002 Jan 11;315(2):141-53. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11779235 11779235]
+
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Paramecium tetraurelia]]
[[Category: Paramecium tetraurelia]]
-
[[Category: Phosphoglucomutase]]
+
[[Category: Breed J]]
-
[[Category: Single protein]]
+
[[Category: Diederichs K]]
-
[[Category: Breed, J.]]
+
[[Category: Hauser K]]
-
[[Category: Diederichs, K.]]
+
[[Category: Kissmehl R]]
-
[[Category: Hauser, K.]]
+
[[Category: Mueller S]]
-
[[Category: Kissmehl, R.]]
+
[[Category: Plattner H]]
-
[[Category: Mueller, S.]]
+
[[Category: Welte W]]
-
[[Category: Plattner, H.]]
+
-
[[Category: Welte, W.]]
+
-
[[Category: exocytosis]]
+
-
[[Category: parafusin]]
+
-
[[Category: phosphoprotein pp63]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:47:56 2008''
+

Current revision

Crystal Structure of the Exocytosis-Sensitive Phosphoprotein, pp63/Parafusin (phosphoglucomutase) from Paramecium

PDB ID 1kfi

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1kfi"
Personal tools