1yq9
From Proteopedia
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|PDB= 1yq9 |SIZE=350|CAPTION= <scene name='initialview01'>1yq9</scene>, resolution 2.35Å | |PDB= 1yq9 |SIZE=350|CAPTION= <scene name='initialview01'>1yq9</scene>, resolution 2.35Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=F3S:FE3-S4+CLUSTER'>F3S</scene>, <scene name='pdbligand=FCO:CARBONMONOXIDE-(DICYANO)+IRON'>FCO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H2S:HYDROSULFURIC+ACID'>H2S</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene> |
| - | |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] | + | |ACTIVITY= <span class='plainlinks'>[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] </span> |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[2frv|2FRV]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yq9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yq9 OCA], [http://www.ebi.ac.uk/pdbsum/1yq9 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1yq9 RCSB]</span> | ||
}} | }} | ||
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[[Category: Rousset, M.]] | [[Category: Rousset, M.]] | ||
[[Category: Volbeda, A.]] | [[Category: Volbeda, A.]] | ||
| - | [[Category: F3S]] | ||
| - | [[Category: FCO]] | ||
| - | [[Category: GOL]] | ||
| - | [[Category: H2S]] | ||
| - | [[Category: MG]] | ||
| - | [[Category: NI]] | ||
| - | [[Category: PER]] | ||
| - | [[Category: SF4]] | ||
[[Category: oxidoreductase]] | [[Category: oxidoreductase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:17:46 2008'' |
Revision as of 22:18, 30 March 2008
| |||||||
| , resolution 2.35Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , , , , | ||||||
| Activity: | Cytochrome-c3 hydrogenase, with EC number 1.12.2.1 | ||||||
| Related: | 2FRV
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| 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
Page seeded by OCA on Mon Mar 31 01:17:46 2008
