1yqi
From Proteopedia
| Line 1: | Line 1: | ||
| - | [[Image:1yqi.gif|left|200px]] | + | [[Image:1yqi.gif|left|200px]] |
| - | + | ||
| - | '''VCP/p97 complexed with ADP''' | + | {{Structure |
| + | |PDB= 1yqi |SIZE=350|CAPTION= <scene name='initialview01'>1yqi</scene>, resolution 4.25Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene> and <scene name='pdbligand=ADP:ADENOSINE-5'-DIPHOSPHATE'>ADP</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= Vcp ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]) | ||
| + | }} | ||
| + | |||
| + | '''VCP/p97 complexed with ADP''' | ||
| + | |||
==Overview== | ==Overview== | ||
| Line 7: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
| - | 1YQI is a [ | + | 1YQI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YQI OCA]. |
==Reference== | ==Reference== | ||
| - | Nucleotide dependent motion and mechanism of action of p97/VCP., DeLaBarre B, Brunger AT, J Mol Biol. 2005 Mar 25;347(2):437-52. PMID:[http:// | + | Nucleotide dependent motion and mechanism of action of p97/VCP., DeLaBarre B, Brunger AT, J Mol Biol. 2005 Mar 25;347(2):437-52. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15740751 15740751] |
[[Category: Mus musculus]] | [[Category: Mus musculus]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
| Line 24: | Line 33: | ||
[[Category: vcp]] | [[Category: vcp]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:26:11 2008'' |
Revision as of 13:26, 20 March 2008
| |||||||
| , resolution 4.25Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | and | ||||||
| Gene: | Vcp (Mus musculus) | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
VCP/p97 complexed with ADP
Overview
The AAA (ATPases associated with a variety of cellular activities) family of proteins bind, hydrolyze, and release ATP to effect conformational changes, assembly, or disassembly upon their binding partners and substrate molecules. One of the members of this family, the hexameric p97/valosin-containing protein p97/VCP, is essential for the dislocation of misfolded membrane proteins from the endoplasmic reticulum. Here, we observe large motions and dynamic changes of p97/VCP as it proceeds through the ATP hydrolysis cycle. The analysis is based on crystal structures of four representative ATP hydrolysis states: APO, AMP-PNP, hydrolysis transition state ADP x AlF3, and ADP bound. Two of the structures presented herein, ADP and AMP-PNP bound, are new structures, and the ADP x AlF3 structure was re-refined to higher resolution. The largest motions occur at two stages during the hydrolysis cycle: after, but not upon, nucleotide binding and then following nucleotide release. The motions occur primarily in the D2 domain, the D1 alpha-helical domain, and the N-terminal domain, relative to the relatively stationary and invariant D1alpha/beta domain. In addition to the motions, we observed a transition from a rigid state to a flexible state upon loss of the gamma-phosphate group, and a further increase in flexibility within the D2 domains upon nucleotide release. The domains within each protomer of the hexameric p97/VCP deviate from strict 6-fold symmetry, with the more flexible ADP state exhibiting greater asymmetry compared to the relatively rigid ADP x AlF3 state, suggesting a mechanism of action in which hydrolysis and conformational changes move about the hexamer in a processive fashion.
About this Structure
1YQI is a Single protein structure of sequence from Mus musculus. Full crystallographic information is available from OCA.
Reference
Nucleotide dependent motion and mechanism of action of p97/VCP., DeLaBarre B, Brunger AT, J Mol Biol. 2005 Mar 25;347(2):437-52. PMID:15740751
Page seeded by OCA on Thu Mar 20 15:26:11 2008
Categories: Mus musculus | Single protein | Brunger, A T. | Delabarre, B. | ADP | ZN | Aaa | Atpase | Cdc48 | Erad | P97 | Vcp
