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.


3g5k

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:59, 6 September 2023) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Structure and activity of human mitochondrial peptide deformylase, a novel cancer target==
==Structure and activity of human mitochondrial peptide deformylase, a novel cancer target==
-
<StructureSection load='3g5k' size='340' side='right' caption='[[3g5k]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+
<StructureSection load='3g5k' size='340' side='right'caption='[[3g5k]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3g5k]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3G5K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3G5K FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3g5k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3G5K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3G5K FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BB2:ACTINONIN'>BB2</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1g2a|1g2a]], [[1ix1|1ix1]], [[1lqw|1lqw]], [[1zy0|1zy0]], [[1zy1|1zy1]], [[3g5p|3g5p]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BB2:ACTINONIN'>BB2</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PDF, PDF1A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3g5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3g5k OCA], [https://pdbe.org/3g5k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3g5k RCSB], [https://www.ebi.ac.uk/pdbsum/3g5k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3g5k ProSAT]</span></td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </span></td></tr>
+
-
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3g5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3g5k OCA], [http://pdbe.org/3g5k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3g5k RCSB], [http://www.ebi.ac.uk/pdbsum/3g5k PDBsum]</span></td></tr>
+
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/DEFM_HUMAN DEFM_HUMAN]] Removes the formyl group from the N-terminal Met of newly synthesized proteins.
+
[https://www.uniprot.org/uniprot/DEFM_HUMAN DEFM_HUMAN] Removes the formyl group from the N-terminal Met of newly synthesized proteins.
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
<jmolCheckbox>
<jmolCheckbox>
-
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/g5/3g5k_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/g5/3g5k_consurf.spt"</scriptWhenChecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<text>to colour the structure by Evolutionary Conservation</text>
<text>to colour the structure by Evolutionary Conservation</text>
Line 34: Line 33:
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Human]]
+
[[Category: Homo sapiens]]
-
[[Category: Peptide deformylase]]
+
[[Category: Large Structures]]
-
[[Category: Escobar-Alvarez, S]]
+
[[Category: Escobar-Alvarez S]]
-
[[Category: Goldgur, Y]]
+
[[Category: Goldgur Y]]
-
[[Category: Li, Y]]
+
[[Category: Li Y]]
-
[[Category: Ouerfelli, O]]
+
[[Category: Ouerfelli O]]
-
[[Category: Scheinberg, D A]]
+
[[Category: Scheinberg DA]]
-
[[Category: Yang, G]]
+
[[Category: Yang G]]
-
[[Category: Actinonin]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Iron]]
+
-
[[Category: Metal-binding]]
+
-
[[Category: Mitochondrion]]
+
-
[[Category: Protein biosynthesis]]
+
-
[[Category: Transit peptide]]
+

Current revision

Structure and activity of human mitochondrial peptide deformylase, a novel cancer target

PDB ID 3g5k

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/3g5k"
Personal tools