1yq9

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[[Image:1yq9.gif|left|200px]]<br /><applet load="1yq9" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:1yq9.gif|left|200px]]
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caption="1yq9, resolution 2.35&Aring;" />
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'''Structure of the unready oxidized form of [NiFe] hydrogenase'''<br />
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{{Structure
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|PDB= 1yq9 |SIZE=350|CAPTION= <scene name='initialview01'>1yq9</scene>, resolution 2.35&Aring;
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|SITE=
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|LIGAND= <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=F3S:FE3-S4+CLUSTER'>F3S</scene>, <scene name='pdbligand=H2S:HYDROSULFURIC+ACID'>H2S</scene>, <scene name='pdbligand=FCO:CARBONMONOXIDE-(DICYANO)+IRON'>FCO</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene> and <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>
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|ACTIVITY= [http://en.wikipedia.org/wiki/Cytochrome-c3_hydrogenase Cytochrome-c3 hydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.12.2.1 1.12.2.1]
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|GENE=
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}}
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'''Structure of the unready oxidized form of [NiFe] hydrogenase'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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1YQ9 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Desulfovibrio_gigas Desulfovibrio gigas] with <scene name='pdbligand=NI:'>NI</scene>, <scene name='pdbligand=MG:'>MG</scene>, <scene name='pdbligand=SF4:'>SF4</scene>, <scene name='pdbligand=F3S:'>F3S</scene>, <scene name='pdbligand=H2S:'>H2S</scene>, <scene name='pdbligand=FCO:'>FCO</scene>, <scene name='pdbligand=PER:'>PER</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Cytochrome-c3_hydrogenase Cytochrome-c3 hydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.12.2.1 1.12.2.1] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YQ9 OCA].
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1YQ9 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Desulfovibrio_gigas Desulfovibrio gigas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YQ9 OCA].
==Reference==
==Reference==
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Structural differences between the ready and unready oxidized states of [NiFe] hydrogenases., Volbeda A, Martin L, Cavazza C, Matho M, Faber BW, Roseboom W, Albracht SP, Garcin E, Rousset M, Fontecilla-Camps JC, J Biol Inorg Chem. 2005 May;10(3):239-49. Epub 2005 Apr 1. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15803334 15803334]
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Structural differences between the ready and unready oxidized states of [NiFe] hydrogenases., Volbeda A, Martin L, Cavazza C, Matho M, Faber BW, Roseboom W, Albracht SP, Garcin E, Rousset M, Fontecilla-Camps JC, J Biol Inorg Chem. 2005 May;10(3):239-49. Epub 2005 Apr 1. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15803334 15803334]
[[Category: Cytochrome-c3 hydrogenase]]
[[Category: Cytochrome-c3 hydrogenase]]
[[Category: Desulfovibrio gigas]]
[[Category: Desulfovibrio gigas]]
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[[Category: oxidoreductase]]
[[Category: oxidoreductase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:07:57 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:26:06 2008''

Revision as of 13:26, 20 March 2008

Image:1yq9.gif


PDB ID 1yq9

Drag the structure with the mouse to rotate
, resolution 2.35Å
Ligands: , , , , , , and
Activity: Cytochrome-c3 hydrogenase, with EC number 1.12.2.1
Coordinates: save as pdb, mmCIF, xml



Structure of the unready oxidized form of [NiFe] hydrogenase


Overview

[NiFe] hydrogenases catalyze the reversible heterolytic cleavage of molecular hydrogen. Several oxidized, inactive states of these enzymes are known that are distinguishable by their very different activation properties. So far, the structural basis for this difference has not been understood because of lack of relevant crystallographic data. Here, we present the crystal structure of the ready Ni-B state of Desulfovibrio fructosovorans [NiFe] hydrogenase and show it to have a putative mu-hydroxo Ni-Fe bridging ligand at the active site. On the other hand, a new, improved refinement procedure of the X-ray diffraction data obtained for putative unready Ni-A/Ni-SU states resulted in a more elongated electron density for the bridging ligand, suggesting that it is a diatomic species. The slow activation of the Ni-A state, compared with the rapid activation of the Ni-B state, is therefore proposed to result from the different chemical nature of the ligands in the two oxidized species. Our results along with very recent electrochemical studies suggest that the diatomic ligand could be hydro-peroxide.

About this Structure

1YQ9 is a Protein complex structure of sequences from Desulfovibrio gigas. Full crystallographic information is available from OCA.

Reference

Structural differences between the ready and unready oxidized states of [NiFe] hydrogenases., Volbeda A, Martin L, Cavazza C, Matho M, Faber BW, Roseboom W, Albracht SP, Garcin E, Rousset M, Fontecilla-Camps JC, J Biol Inorg Chem. 2005 May;10(3):239-49. Epub 2005 Apr 1. PMID:15803334

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