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.


2o07

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (00:12, 28 December 2023) (edit) (undo)
 
(5 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Human spermidine synthase==
==Human spermidine synthase==
-
<StructureSection load='2o07' size='340' side='right' caption='[[2o07]], [[Resolution|resolution]] 1.89&Aring;' scene=''>
+
<StructureSection load='2o07' size='340' side='right'caption='[[2o07]], [[Resolution|resolution]] 1.89&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[2o07]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O07 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O07 FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[2o07]] is a 2 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=2O07 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O07 FirstGlance]. <br>
-
</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MTA:5-DEOXY-5-METHYLTHIOADENOSINE'>MTA</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene><br>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.89&#8491;</td></tr>
-
<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2o05|2o05]], [[2o06|2o06]], [[2o0l|2o0l]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MTA:5-DEOXY-5-METHYLTHIOADENOSINE'>MTA</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene></td></tr>
-
<tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SRM, SPS1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=2o07 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o07 OCA], [https://pdbe.org/2o07 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o07 RCSB], [https://www.ebi.ac.uk/pdbsum/2o07 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o07 ProSAT]</span></td></tr>
-
<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Spermidine_synthase Spermidine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.16 2.5.1.16] </span></td></tr>
+
</table>
-
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2o07 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o07 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o07 RCSB], [http://www.ebi.ac.uk/pdbsum/2o07 PDBsum]</span></td></tr>
+
== Function ==
-
<table>
+
[https://www.uniprot.org/uniprot/SPEE_HUMAN SPEE_HUMAN] Catalyzes the production of spermidine from putrescine and decarboxylated S-adenosylmethionine (dcSAM). Has a strong preference for putrescine as substrate, and has very low activity towards 1,3-diaminopropane. Has extremely low activity towards spermidine.
== 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/o0/2o07_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o0/2o07_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>
</jmolCheckbox>
</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/chain_selection.php?pdb_ID=2ata ConSurf].
+
</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=2o07 ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
Line 27: Line 28:
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
</div>
 +
<div class="pdbe-citations 2o07" style="background-color:#fffaf0;"></div>
==See Also==
==See Also==
-
*[[Spermidine Synthase|Spermidine Synthase]]
+
*[[Spermidine synthase 3D structures|Spermidine synthase 3D structures]]
== References ==
== References ==
<references/>
<references/>
Line 35: Line 37:
</StructureSection>
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Spermidine synthase]]
+
[[Category: Large Structures]]
-
[[Category: Arrowsmith, C H.]]
+
[[Category: Arrowsmith CH]]
-
[[Category: Bochkarev, A.]]
+
[[Category: Bochkarev A]]
-
[[Category: Edwards, A M.]]
+
[[Category: Edwards AM]]
-
[[Category: Loppnau, P.]]
+
[[Category: Loppnau P]]
-
[[Category: Min, J.]]
+
[[Category: Min J]]
-
[[Category: Plotnikov, A N.]]
+
[[Category: Plotnikov AN]]
-
[[Category: SGC, Structural Genomics Consortium.]]
+
[[Category: Sundstrom M]]
-
[[Category: Sundstrom, M.]]
+
[[Category: Weigelt J]]
-
[[Category: Weigelt, J.]]
+
[[Category: Wu H]]
-
[[Category: Wu, H.]]
+
[[Category: Zeng H]]
-
[[Category: Zeng, H.]]
+
-
[[Category: Sgc]]
+
-
[[Category: Spermidine synthase]]
+
-
[[Category: Structural genomic]]
+
-
[[Category: Structural genomics consortium]]
+
-
[[Category: Transferase]]
+

Current revision

Human spermidine synthase

PDB ID 2o07

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/2o07"
Personal tools