1r5t: Difference between revisions
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|PDB= 1r5t |SIZE=350|CAPTION= <scene name='initialview01'>1r5t</scene>, resolution 2.00Å | |PDB= 1r5t |SIZE=350|CAPTION= <scene name='initialview01'>1r5t</scene>, resolution 2.00Å | ||
|SITE= | |SITE= | ||
|LIGAND= <scene name='pdbligand=ZN:ZINC ION'>ZN</scene> | |LIGAND= <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene> | ||
|ACTIVITY= [http://en.wikipedia.org/wiki/Cytidine_deaminase Cytidine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.5 3.5.4.5] | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytidine_deaminase Cytidine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.5 3.5.4.5] </span> | ||
|GENE= Cdd1p ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]) | |GENE= Cdd1p ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]) | ||
|DOMAIN= | |||
|RELATEDENTRY=[[1af2|1AF2]], [[1jtk|1JTK]] | |||
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1r5t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r5t OCA], [http://www.ebi.ac.uk/pdbsum/1r5t PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1r5t RCSB]</span> | |||
}} | }} | ||
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[[Category: Wedekind, J E.]] | [[Category: Wedekind, J E.]] | ||
[[Category: Xie, K.]] | [[Category: Xie, K.]] | ||
[[Category: apobec-1 related protein]] | [[Category: apobec-1 related protein]] | ||
[[Category: rna editing]] | [[Category: rna editing]] | ||
[[Category: zinc dependent deaminase]] | [[Category: zinc dependent deaminase]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:23:39 2008'' | ||
Revision as of 23:23, 30 March 2008
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| , resolution 2.00Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Gene: | Cdd1p (Saccharomyces cerevisiae) | ||||||
| Activity: | Cytidine deaminase, with EC number 3.5.4.5 | ||||||
| Related: | 1AF2, 1JTK
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
The Crystal Structure of Cytidine Deaminase CDD1, an Orphan C to U editase from Yeast
OverviewOverview
Activation-induced deaminase (AID) uses base deamination for class-switch recombination and somatic hypermutation and is related to the mammalian RNA-editing enzyme apolipoprotein B editing catalytic subunit 1 (APOBEC-1). CDD1 is a yeast ortholog of APOBEC-1 that exhibits cytidine deaminase and RNA-editing activity. Here, we present the crystal structure of CDD1 at 2.0-A resolution and its use in comparative modeling of APOBEC-1 and AID. The models explain dimerization and the need for trans-acting loops that contribute to active site formation. Substrate selectivity appears to be regulated by a central active site "flap" whose size and flexibility accommodate large substrates in contrast to deaminases of pyrimidine metabolism that bind only small nucleosides or free bases. Most importantly, the results suggested both AID and APOBEC-1 are equally likely to bind single-stranded DNA or RNA, which has implications for the identification of natural AID targets.
About this StructureAbout this Structure
1R5T is a Single protein structure of sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.
ReferenceReference
The structure of a yeast RNA-editing deaminase provides insight into the fold and function of activation-induced deaminase and APOBEC-1., Xie K, Sowden MP, Dance GS, Torelli AT, Smith HC, Wedekind JE, Proc Natl Acad Sci U S A. 2004 May 25;101(21):8114-9. Epub 2004 May 17. PMID:15148397
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