The APOBEC-2 crystal structure and functional implications for the deaminase AID

APOBEC-2 (APO2) belongs to the family of apolipoprotein B messenger RNA-editing enzyme catalytic (APOBEC) polypeptides, which deaminates mRNA and single-stranded DNA 1 , 2 . Different APOBEC members use the same deamination activity to achieve diverse human biological functions. Deamination by an AP...

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Veröffentlicht in:Nature 2007-01, Vol.445 (7126), p.447-451
Hauptverfasser: Prochnow, Courtney, Bransteitter, Ronda, Klein, Michael G., Goodman, Myron F., Chen, Xiaojiang S.
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container_issue 7126
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creator Prochnow, Courtney
Bransteitter, Ronda
Klein, Michael G.
Goodman, Myron F.
Chen, Xiaojiang S.
description APOBEC-2 (APO2) belongs to the family of apolipoprotein B messenger RNA-editing enzyme catalytic (APOBEC) polypeptides, which deaminates mRNA and single-stranded DNA 1 , 2 . Different APOBEC members use the same deamination activity to achieve diverse human biological functions. Deamination by an APOBEC protein called activation-induced cytidine deaminase (AID) is critical for generating high-affinity antibodies 3 , and deamination by APOBEC-3 proteins can inhibit retrotransposons and the replication of retroviruses such as human immunodeficiency virus and hepatitis B virus 4 , 5 , 6 , 7 . Here we report the crystal structure of APO2. APO2 forms a rod-shaped tetramer that differs markedly from the square-shaped tetramer of the free nucleotide cytidine deaminase, with which APOBEC proteins share considerable sequence homology. In APO2, two long α-helices of a monomer structure prevent the formation of a square-shaped tetramer and facilitate formation of the rod-shaped tetramer via head-to-head interactions of two APO2 dimers. Extensive sequence homology among APOBEC family members allows us to test APO2 structure-based predictions using AID. We show that AID deamination activity is impaired by mutations predicted to interfere with oligomerization and substrate access. The structure suggests how mutations in patients with hyper-IgM-2 syndrome inactivate AID, resulting in defective antibody maturation.
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Different APOBEC members use the same deamination activity to achieve diverse human biological functions. Deamination by an APOBEC protein called activation-induced cytidine deaminase (AID) is critical for generating high-affinity antibodies 3 , and deamination by APOBEC-3 proteins can inhibit retrotransposons and the replication of retroviruses such as human immunodeficiency virus and hepatitis B virus 4 , 5 , 6 , 7 . Here we report the crystal structure of APO2. APO2 forms a rod-shaped tetramer that differs markedly from the square-shaped tetramer of the free nucleotide cytidine deaminase, with which APOBEC proteins share considerable sequence homology. In APO2, two long α-helices of a monomer structure prevent the formation of a square-shaped tetramer and facilitate formation of the rod-shaped tetramer via head-to-head interactions of two APO2 dimers. Extensive sequence homology among APOBEC family members allows us to test APO2 structure-based predictions using AID. We show that AID deamination activity is impaired by mutations predicted to interfere with oligomerization and substrate access. The structure suggests how mutations in patients with hyper-IgM-2 syndrome inactivate AID, resulting in defective antibody maturation.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>17187054</pmid><doi>10.1038/nature05492</doi><tpages>5</tpages></addata></record>
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subjects Amino Acid Sequence
APOBEC Deaminases
Binding Sites
Biological and medical sciences
Crystal structure
Crystalline structure
Crystallography, X-Ray
Cytidine Deaminase - chemistry
Cytidine Deaminase - genetics
Cytidine Deaminase - metabolism
Deamination
Deoxyribonucleic acid
Dimerization
DNA
DNA - metabolism
Enzymes
Fundamental and applied biological sciences. Psychology
Hepatitis
Hepatitis B virus
Human immunodeficiency virus
Humanities and Social Sciences
Humans
Hyper-IgM Immunodeficiency Syndrome - enzymology
Hyper-IgM Immunodeficiency Syndrome - genetics
Immunology
letter
Models, Molecular
Molecular biophysics
Molecular Sequence Data
multidisciplinary
Muscle Proteins - chemistry
Muscle Proteins - metabolism
Mutation
Mutation - genetics
Protein Structure, Quaternary
Proteins
Retrovirus
RNA - metabolism
Science
Science (multidisciplinary)
Structure in molecular biology
title The APOBEC-2 crystal structure and functional implications for the deaminase AID
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