1fdi: Difference between revisions

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Revision as of 12:07, 20 March 2008

File:1fdi.gif

, resolution 2.9Å

Sites:

and

Ligands:

, , and

Gene:

FDHF (Escherichia coli)

Activity:

Formate dehydrogenase, with EC number 1.2.1.2

Coordinates:

save as pdb, mmCIF, xml

OXIDIZED FORM OF FORMATE DEHYDROGENASE H FROM E. COLI COMPLEXED WITH THE INHIBITOR NITRITE

OverviewOverview

Formate dehydrogenase H from Escherichia coli contains selenocysteine (SeCys), molybdenum, two molybdopterin guanine dinucleotide (MGD) cofactors, and an Fe4S4 cluster at the active site and catalyzes the two-electron oxidation of formate to carbon dioxide. The crystal structures of the oxidized [Mo(VI), Fe4S4(ox)] form of formate dehydrogenase H (with and without bound inhibitor) and the reduced [Mo(IV), Fe4S4(red)] form have been determined, revealing a four-domain alphabeta structure with the molybdenum directly coordinated to selenium and both MGD cofactors. These structures suggest a reaction mechanism that directly involves SeCys140 and His141 in proton abstraction and the molybdenum, molybdopterin, Lys44, and the Fe4S4 cluster in electron transfer.

About this StructureAbout this Structure

1FDI is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.

ReferenceReference

Crystal structure of formate dehydrogenase H: catalysis involving Mo, molybdopterin, selenocysteine, and an Fe4S4 cluster., Boyington JC, Gladyshev VN, Khangulov SV, Stadtman TC, Sun PD, Science. 1997 Feb 28;275(5304):1305-8. PMID:9036855

Page seeded by OCA on Thu Mar 20 11:07:44 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1fdi.gif|left|200px]]<br /><applet load="1fdi" size="350" color="white" frame="true" align="right" spinBox="true"
+[[Image:1fdi.gif|left|200px]]
-caption="1fdi, resolution 2.9&Aring;" />
-'''OXIDIZED FORM OF FORMATE DEHYDROGENASE H FROM E. COLI COMPLEXED WITH THE INHIBITOR NITRITE'''<br />
+ {{Structure
+|PDB= 1fdi |SIZE=350|CAPTION= <scene name='initialview01'>1fdi</scene>, resolution 2.9&Aring;
+|SITE= <scene name='pdbsite=FS4:The+Fe+S+Cluster+Is+Coordinated+To+The+S+Atoms+Of+CYS+8,+...'>FS4</scene> and <scene name='pdbsite=MO4:The+Mo+Atom+Is+Coordinated+To+The+Se+Atom+Of+Sec+140,+Th+...'>MO4</scene>
+|LIGAND= <scene name='pdbligand=NO2:NITRITE+ION'>NO2</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene> and <scene name='pdbligand=6MO:MOLYBDENUM(VI) ION'>6MO</scene>
+|ACTIVITY= [http://en.wikipedia.org/wiki/Formate_dehydrogenase Formate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.2.1.2 1.2.1.2]
+|GENE= FDHF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
+}}
+'''OXIDIZED FORM OF FORMATE DEHYDROGENASE H FROM E. COLI COMPLEXED WITH THE INHIBITOR NITRITE'''
 ==Overview==
@@ Line 7: / Line 16: @@
 ==About this Structure==
-FDI is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with <scene name='pdbligand=NO2:'>NO2</scene>, <scene name='pdbligand=SF4:'>SF4</scene>, <scene name='pdbligand=MGD:'>MGD</scene> and <scene name='pdbligand=6MO:'>6MO</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Formate_dehydrogenase Formate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.2.1.2 1.2.1.2] Known structural/functional Sites: <scene name='pdbsite=FS4:The+Fe+S+Cluster+Is+Coordinated+To+The+S+Atoms+Of+CYS+8,+...'>FS4</scene> and <scene name='pdbsite=MO4:The+Mo+Atom+Is+Coordinated+To+The+Se+Atom+Of+Sec+140,+Th+...'>MO4</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FDI OCA].
+FDI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FDI OCA].
 ==Reference==
-Crystal structure of formate dehydrogenase H: catalysis involving Mo, molybdopterin, selenocysteine, and an Fe4S4 cluster., Boyington JC, Gladyshev VN, Khangulov SV, Stadtman TC, Sun PD, Science. 1997 Feb 28;275(5304):1305-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9036855 9036855]
+Crystal structure of formate dehydrogenase H: catalysis involving Mo, molybdopterin, selenocysteine, and an Fe4S4 cluster., Boyington JC, Gladyshev VN, Khangulov SV, Stadtman TC, Sun PD, Science. 1997 Feb 28;275(5304):1305-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9036855 9036855]
 [[Category: Escherichia coli]]
 [[Category: Formate dehydrogenase]]
@@ Line 31: / Line 40: @@
 [[Category: mpt]]
 [[Category: oxidoreductase]]
-[[Category: secys]]
+[[Category: secy]]
 [[Category: selenium]]
 [[Category: selenocysteine]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:37:33 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:07:44 2008''