6BBO

Crystal structure of human APOBEC3H/RNA complex

Summary for 6BBO

• Entry DOI: 10.2210/pdb6bbo/pdb
• Related: 6B0B
• Descriptor: APOBEC3H, RNA (5'-R(*UP*AP*AP*AP*AP*AP*AP*A)-3'), RNA (5'-R(*UP*UP*UP*UP*UP*UP*UP*U)-3'), ... (6 entities in total)
• Functional Keywords: apobec, deaminase., hydrolase, hydrolase-rna complex, hydrolase/rna
• Biological source: Homo sapiens (Human); More
• Total number of polymer chains: 8
• Total formula weight: 102860.69

Authors

Shaban, N.M.,Shi, K.,Banerjee, S.,Harris, R.S.,Aihara, H. (deposition date: 2017-10-19, release date: 2018-01-10, Last modification date: 2024-10-30)

Primary citation

Shaban, N.M.,Shi, K.,Lauer, K.V.,Carpenter, M.A.,Richards, C.M.,Salamango, D.,Wang, J.,Lopresti, M.W.,Banerjee, S.,Levin-Klein, R.,Brown, W.L.,Aihara, H.,Harris, R.S.
The Antiviral and Cancer Genomic DNA Deaminase APOBEC3H Is Regulated by an RNA-Mediated Dimerization Mechanism.
Mol. Cell, 69:75-86.e9, 2018

PubMed Abstract: Human APOBEC3H and homologous single-stranded DNA cytosine deaminases are unique to mammals. These DNA-editing enzymes function in innate immunity by restricting the replication of viruses and transposons. APOBEC3H also contributes to cancer mutagenesis. Here, we address the fundamental nature of RNA in regulating human APOBEC3H activities. APOBEC3H co-purifies with RNA as an inactive protein, and RNase A treatment enables strong DNA deaminase activity. RNA-binding-defective mutants demonstrate clear separation of function by becoming DNA hypermutators. Biochemical and crystallographic data demonstrate a mechanism in which double-stranded RNA mediates enzyme dimerization. Additionally, APOBEC3H separation-of-function mutants show that RNA binding is required for cytoplasmic localization, packaging into HIV-1 particles, and antiviral activity. Overall, these results support a model in which structured RNA negatively regulates the potentially harmful DNA deamination activity of APOBEC3H while, at the same time, positively regulating its antiviral activity.

PubMed: 29290613
DOI: 10.1016/j.molcel.2017.12.010

Experimental method

X-RAY DIFFRACTION (3.428 Å)