2g07: Difference between revisions
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'''X-ray structure of mouse pyrimidine 5'-nucleotidase type 1, phospho-enzyme intermediate analog with Beryllium fluoride''' | {{Structure | ||
|PDB= 2g07 |SIZE=350|CAPTION= <scene name='initialview01'>2g07</scene>, resolution 2.300Å | |||
|SITE= | |||
|LIGAND= <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene> | |||
|ACTIVITY= [http://en.wikipedia.org/wiki/Lysophospholipase Lysophospholipase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.5 3.1.1.5] | |||
|GENE= NT5C3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]) | |||
}} | |||
'''X-ray structure of mouse pyrimidine 5'-nucleotidase type 1, phospho-enzyme intermediate analog with Beryllium fluoride''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
2G07 is a [ | 2G07 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=2G07 OCA]. | ||
==Reference== | ==Reference== | ||
Structure of pyrimidine 5'-nucleotidase type 1. Insight into mechanism of action and inhibition during lead poisoning., Bitto E, Bingman CA, Wesenberg GE, McCoy JG, Phillips GN Jr, J Biol Chem. 2006 Jul 21;281(29):20521-9. Epub 2006 May 3. PMID:[http:// | Structure of pyrimidine 5'-nucleotidase type 1. Insight into mechanism of action and inhibition during lead poisoning., Bitto E, Bingman CA, Wesenberg GE, McCoy JG, Phillips GN Jr, J Biol Chem. 2006 Jul 21;281(29):20521-9. Epub 2006 May 3. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16672222 16672222] | ||
[[Category: Lysophospholipase]] | [[Category: Lysophospholipase]] | ||
[[Category: Mus musculus]] | [[Category: Mus musculus]] | ||
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[[Category: aah38029]] | [[Category: aah38029]] | ||
[[Category: bc038029]] | [[Category: bc038029]] | ||
[[Category: center for eukaryotic structural | [[Category: center for eukaryotic structural genomic]] | ||
[[Category: cesg]] | [[Category: cesg]] | ||
[[Category: cytosolic 5'-nucleotidase iii]] | [[Category: cytosolic 5'-nucleotidase iii]] | ||
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[[Category: uniprot q9d020]] | [[Category: uniprot q9d020]] | ||
''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 16:58:54 2008'' | ||
Revision as of 17:58, 20 March 2008
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| , resolution 2.300Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Gene: | NT5C3 (Mus musculus) | ||||||
| Activity: | Lysophospholipase, with EC number 3.1.1.5 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
X-ray structure of mouse pyrimidine 5'-nucleotidase type 1, phospho-enzyme intermediate analog with Beryllium fluoride
OverviewOverview
Eukaryotic pyrimidine 5'-nucleotidase type 1 (P5N-1) catalyzes dephosphorylation of pyrimidine 5'-mononucleotides. Deficiency of P5N-1 activity in red blood cells results in nonspherocytic hemolytic anemia. The enzyme deficiency is either familial or can be acquired through lead poisoning. We present the crystal structure of mouse P5N-1 refined to 2.35 A resolution. The mouse P5N-1 has a 92% sequence identity to its human counterpart. The structure revealed that P5N-1 adopts a fold similar to enzymes of the haloacid dehydrogenase superfamily. The active site of this enzyme is structurally highly similar to those of phosphoserine phosphatases. We propose a catalytic mechanism for P5N-1 that is also similar to that of phosphoserine phosphatases and provide experimental evidence for the mechanism in the form of structures of several reaction cycle states, including: 1) P5N-1 with bound Mg(II) at 2.25 A, 2) phosphoenzyme intermediate analog at 2.30 A, 3) product-transition complex analog at 2.35 A, and 4) product complex at 2.1A resolution with phosphate bound in the active site. Furthermore the structure of Pb(II)-inhibited P5N-1 (at 2.35 A) revealed that Pb(II) binds within the active site in a way that compromises function of the cationic cavity, which is required for the recognition and binding of the phosphate group of nucleotides.
About this StructureAbout this Structure
2G07 is a Single protein structure of sequence from Mus musculus. Full crystallographic information is available from OCA.
ReferenceReference
Structure of pyrimidine 5'-nucleotidase type 1. Insight into mechanism of action and inhibition during lead poisoning., Bitto E, Bingman CA, Wesenberg GE, McCoy JG, Phillips GN Jr, J Biol Chem. 2006 Jul 21;281(29):20521-9. Epub 2006 May 3. PMID:16672222
Page seeded by OCA on Thu Mar 20 16:58:54 2008
Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)
OCA- Pages with broken file links
- Lysophospholipase
- Mus musculus
- Single protein
- Bingman, C A.
- Bitto, E.
- CESG, Center for Eukaryotic Structural Genomics.
- Jr., G N.Phillips.
- Wesenberg, G E.
- MG
- Aah38029
- Bc038029
- Center for eukaryotic structural genomic
- Cesg
- Cytosolic 5'-nucleotidase iii
- Lead poisoning
- Mm 158936
- Nt5c3 protein
- P5n-1
- Protein structure initiative
- Psi
- Pyrimidine 5'-nucleotidase 1
- Structural genomics functional follow-up study
- Umph-1
- Uniprot q9d020