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.


3dyf

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:43, 21 February 2024) (edit) (undo)
 
(5 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3dyf.png|left|200px]]
 
-
{{STRUCTURE_3dyf| PDB=3dyf | SCENE= }}
+
==T. Brucei Farnesyl Diphosphate Synthase Complexed with Bisphosphonate BPH-461 and Isopentyl Diphosphate==
-
 
+
<StructureSection load='3dyf' size='340' side='right'caption='[[3dyf]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
-
===T. Brucei Farnesyl Diphosphate Synthase Complexed with Bisphosphonate BPH-461 and Isopentyl Diphosphate===
+
== Structural highlights ==
-
 
+
<table><tr><td colspan='2'>[[3dyf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_brucei Trypanosoma brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DYF FirstGlance]. <br>
-
{{ABSTRACT_PUBMED_19309137}}
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.65&#8491;</td></tr>
-
 
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=IPR:ISOPENTYL+PYROPHOSPHATE'>IPR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NI9:3-FLUORO-1-(2-HYDROXY-2,2-DIPHOSPHONOETHYL)PYRIDINIUM'>NI9</scene></td></tr>
-
==About this Structure==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dyf OCA], [https://pdbe.org/3dyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dyf RCSB], [https://www.ebi.ac.uk/pdbsum/3dyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dyf ProSAT]</span></td></tr>
-
[[3dyf]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_brucei Trypanosoma brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DYF OCA].
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q86C09_9TRYP Q86C09_9TRYP]
 +
== 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/dy/3dyf_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=3dyf ConSurf].
 +
<div style="clear:both"></div>
==See Also==
==See Also==
-
*[[Farnesyl diphosphate synthase|Farnesyl diphosphate synthase]]
+
*[[Farnesyl diphosphate synthase 3D structures|Farnesyl diphosphate synthase 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
<ref group="xtra">PMID:019309137</ref><references group="xtra"/>
+
[[Category: Large Structures]]
-
[[Category: Geranyltranstransferase]]
+
[[Category: Trypanosoma brucei]]
[[Category: Trypanosoma brucei]]
-
[[Category: Cao, R.]]
+
[[Category: Cao R]]
-
[[Category: Gao, Y.]]
+
[[Category: Gao Y]]
-
[[Category: Goddard, A.]]
+
[[Category: Goddard A]]
-
[[Category: Oldfield, E.]]
+
[[Category: Oldfield E]]
-
[[Category: Robinson, H.]]
+
[[Category: Robinson H]]
-
[[Category: Isoprene biosynthesis]]
+
-
[[Category: Protein-bisphosphonate complex]]
+
-
[[Category: Transferase]]
+

Current revision

T. Brucei Farnesyl Diphosphate Synthase Complexed with Bisphosphonate BPH-461 and Isopentyl Diphosphate

PDB ID 3dyf

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/3dyf"
Personal tools