1kmk

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
==E. coli NifS/CsdB protein at 2.20A with the cysteine perselenide intermediate (residue CSZ).==
==E. coli NifS/CsdB protein at 2.20A with the cysteine perselenide intermediate (residue CSZ).==
-
<StructureSection load='1kmk' size='340' side='right'caption='[[1kmk]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
+
<StructureSection load='1kmk' size='340' side='right'caption='[[1kmk]]' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[1kmk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KMK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KMK FirstGlance]. <br>
+
<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KMK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KMK FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=SEC:SELENOCYSTEINE'>SEC</scene></td></tr>
+
</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=1kmk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kmk OCA], [https://pdbe.org/1kmk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kmk RCSB], [https://www.ebi.ac.uk/pdbsum/1kmk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kmk ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1kmk TOPSAN]</span></td></tr>
-
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSZ:S-SELANYL+CYSTEINE'>CSZ</scene></td></tr>
+
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1jf9|1jf9]], [[1kmj|1kmj]]</td></tr>
+
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Selenocysteine_lyase Selenocysteine lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.4.1.16 4.4.1.16] </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=1kmk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kmk OCA], [http://pdbe.org/1kmk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kmk RCSB], [http://www.ebi.ac.uk/pdbsum/1kmk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kmk ProSAT], [http://www.topsan.org/Proteins/NYSGXRC/1kmk TOPSAN]</span></td></tr>
+
</table>
</table>
-
== Function ==
 
-
[[http://www.uniprot.org/uniprot/SUFS_ECOLI SUFS_ECOLI]] Cysteine desulfurases mobilize the sulfur from L-cysteine to yield L-alanine, an essential step in sulfur metabolism for biosynthesis of a variety of sulfur-containing biomolecules. Component of the suf operon, which is activated and required under specific conditions such as oxidative stress and iron limitation. Acts as a potent selenocysteine lyase in vitro, that mobilizes selenium from L-selenocysteine. Selenocysteine lyase activity is however unsure in vivo.<ref>PMID:10829016</ref> <ref>PMID:12089140</ref> <ref>PMID:11997471</ref> <ref>PMID:12876288</ref> <ref>PMID:12941942</ref>
 
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Line 22: Line 16:
</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=1kmk 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=1kmk ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
-
<div style="background-color:#fffaf0;">
 
-
== Publication Abstract from PubMed ==
 
-
The Escherichia coli NifS CsdB protein is a member of the homodimeric pyridoxal 5'-phosphate (PLP)-dependent family of enzymes. These enzymes are capable of decomposing cysteine or selenocysteine into L-alanine and sulfur or selenium, respectively. E. coli NifS CsdB has a high specificity for L-selenocysteine in comparison to l-cysteine, suggesting a role for this enzyme is selenium metabolism. The 2.0 A crystal structure of E. coli NifS CsdB reveals a high-resolution view of the active site of this enzyme in apo-, persulfide, perselenide, and selenocysteine-bound intermediates, suggesting a mechanism for the stabilization of the enzyme persulfide and perselenide intermediates during catalysis, a necessary intermediate in the formation of sulfur and selenium containing metabolites.
 
- 
-
Analysis of the E. coli NifS CsdB protein at 2.0 A reveals the structural basis for perselenide and persulfide intermediate formation.,Lima CD J Mol Biol. 2002 Feb 1;315(5):1199-208. PMID:11827487<ref>PMID:11827487</ref>
 
- 
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
-
</div>
 
-
<div class="pdbe-citations 1kmk" style="background-color:#fffaf0;"></div>
 
==See Also==
==See Also==
*[[Selenocysteine lyase|Selenocysteine lyase]]
*[[Selenocysteine lyase|Selenocysteine lyase]]
-
== References ==
 
-
<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Bacillus coli migula 1895]]
 
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Selenocysteine lyase]]
+
[[Category: Burley SK]]
-
[[Category: Burley, S K]]
+
[[Category: Lima CD]]
-
[[Category: Lima, C D]]
+
-
[[Category: Structural genomic]]
+
-
[[Category: Lyase]]
+
-
[[Category: Nifs selenocysteine cysteine persulfide perselenide xray]]
+
-
[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics]]
+
-
[[Category: PSI, Protein structure initiative]]
+

Revision as of 08:48, 21 April 2021

E. coli NifS/CsdB protein at 2.20A with the cysteine perselenide intermediate (residue CSZ).

PDB ID 1kmk

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools