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Evidence of a critical architectural function for the RAG proteins in end processing, protection, and joining in V(D)J recombinationPreprint

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Biochemistry of V(D)J Recombination

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A RAG1 and RAG2 Tetramer Complex Is Active in Cleavage in V(D)J Recombination

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Detection of RAG Protein-V(D)J Recombination Signal Interactions Near the Site of DNA Cleavage by UV Cross-Linking

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The RING Finger Motif of Photomorphogenic Repressor COP1 Specifically Interacts with the RING-H2 Motif of a NovelArabidopsis Protein

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N-terminal RAG1 frameshift mutations in Omenn's syndrome: Internal methionine usage leads to partial V(D)J recombination activity and reveals a fundamental role in vivo for the N-terminal domains

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Mutational Analysis of All Conserved Basic Amino Acids in RAG-1 Reveals Catalytic, Step Arrest, and Joining-Deficient Mutants in the V(D)J Recombinase

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Regulation of RAG1/RAG2‐mediated transposition by GTP and the C‐terminal region of RAG2

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A Basic Motif in the N-Terminal Region of RAG1 Enhances V(D)J Recombination Activity

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TbMP42, a Protein Component of the RNA Editing Complex in African Trypanosomes, Has Endo-Exoribonuclease Activity

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Identification of Two Topologically Independent Domains in RAG1 and Their Role in Macromolecular Interactions Relevant to V(D)J Recombination

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Putting the pieces together: identification and characterization of structural domains in the V(D)J recombination protein RAG1

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VprBP binds full‐length RAG1 and is required for B‐cell development and V(D)J recombination fidelity

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Definition of Minimal Domains of Interaction Within the Recombination-Activating Genes 1 and 2 Recombinase Complex

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Molluscan mobile elements similar to the vertebrate Recombination-Activating Genes

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The Central Domain of Core RAG1 Preferentially Recognizes Single-stranded Recombination Signal Sequence Heptamer

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Nicking is asynchronous and stimulated by synapsis in 12/23 rule-regulated V(D)J cleavage

Eastman, Q., & Schatz, D. G. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.21.4370 · Cited by 38 · see citing works

Association of ZNF74 gene genotypes with age-at-onset of schizophrenia

Takase, K., Ohtsuki, T., Migita, O., Toru, M., Inada, T., Yamakawa‐Kobayashi, K., & Arinami, T. (2001) · Schizophrenia Research · doi:10.1016/s0920-9964(00)00191-2 · Cited by 37 · see citing works

RAG1-mediated ubiquitylation of histone H3 is required for chromosomal V(D)J recombination

Deng, Z., Liu, H., & Liu, X. (2015) · Cell Research · doi:10.1038/cr.2015.1 · Cited by 35 · see citing works

RAG1 and RAG2 in V(D)J Recombination and Transposition

Fugmann, S. D. (2001) · Immunologic Research · doi:10.1385/ir:23:1:23 · Cited by 34 · see citing works

Molecular Cloning of a Novel RING Finger-B Box-Coiled Coil (RBCC) Protein, terf, Expressed in the Testis

Ogawa, S., Goto, W., Orimo, A., Hosoi, T., Ouchi, Y., Muramatsu, M., & Inoue, S. (1998) · Biochemical and Biophysical Research Communications · doi:10.1006/bbrc.1998.9502 · Cited by 33 · see citing works

Natural Substrates of the Proteasome and Their Recognition by the Ubiquitin System

Ulrich, H. D. (2002) · Current topics in microbiology and immunology · doi:10.1007/978-3-642-59414-4_6 · Cited by 33 · see citing works

V(D)J Recombination

Gellert, M. F. (2007) · doi:10.1128/9781555817954.ch29 · Cited by 33 · see citing works

Recombination-Activating Genes, Transposition, and the Lymphoid-Specific Combinatorial Immune System: A Common Evolutionary Connection

Hansen, J. D., & McBlane, J. F. (2000) · Current topics in microbiology and immunology · doi:10.1007/978-3-642-59674-2_6 · Cited by 32 · see citing works

Recombination‐activating gene proteins: more regulation, please

Sadofsky, M. J. (2004) · Immunological Reviews · doi:10.1111/j.0105-2896.2004.00164.x · Cited by 31 · see citing works

The recombinase activating genes: architects of immune diversity during lymphocyte development

Braams, M., Pike-Overzet, K., & Staal, F. (2023) · Frontiers in Immunology · doi:10.3389/fimmu.2023.1210818 · Cited by 27 · see citing works

Biochemical and Folding Defects in a RAG1 Variant Associated with Omenn Syndrome

Simkus, C., Anand, P., Bhattacharyya, A., & Jones, J. M. (2007) · The Journal of Immunology · doi:10.4049/jimmunol.179.12.8332 · Cited by 30 · see citing works

Structural gymnastics of RAG-mediated DNA cleavage in V(D)J recombination

Ru, H., Zhang, P., & Wu, H. (2018) · Current Opinion in Structural Biology · doi:10.1016/j.sbi.2018.11.001 · Cited by 30 · see citing works

Self-association and conformational properties of RAG1: implications for formation of the V(D)J recombinase

Godderz, L. J. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg281 · Cited by 28 · see citing works

Karyopherin alpha 1 is a putative substrate of the RAG1 ubiquitin ligase

Simkus, C., Makiya, M. A., & Jones, J. M. (2009) · Molecular Immunology · doi:10.1016/j.molimm.2008.11.009 · Cited by 27 · see citing works

The Mechanism of V(D)J Recombination

Little, A. J., Matthews, A. G. W., Oettinger, M. A., Roth, D. B., & Schatz, D. G. (2014) · Elsevier eBooks · doi:10.1016/b978-0-12-397933-9.00002-3 · Cited by 25 · see citing works

Riches in RAGs: Revealing the V(D)J Recombinase through High-Resolution Structures

Rodgers, K. K. (2016) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2016.10.003 · Cited by 26 · see citing works

A palmitoylated RING finger ubiquitin ligase and its homologue in the brain membranes

Araki, K., Kawamura, M., Suzuki, T., Matsuda, N., Kambe, D., Ishii, K., Ichikawa, T., Kumanishi, T., Chiba, T., Tanaka, K., et al. (2003) · Journal of Neurochemistry · doi:10.1046/j.1471-4159.2003.01875.x · Cited by 24 · see citing works

Elucidating the domain architecture and functions of non-core RAG1: The capacity of a non-core zinc-binding domain to function in nuclear import and nucleic acid binding

Arbuckle, J. L., Rahman, N. S., Zhao, S., Rodgers, W., & Rodgers, K. K. (2011) · BMC Biochemistry · doi:10.1186/1471-2091-12-23 · Cited by 24 · see citing works

DNA Cleavage Activity of the V(D)J Recombination Protein RAG1 Is Autoregulated

De, P., Peak, M. M., & Rodgers, K. K. (2004) · Molecular and Cellular Biology · doi:10.1128/mcb.24.15.6850-6860.2004 · Cited by 20 · see citing works

Correlation between recombinase activating gene 1 ubiquitin ligase activity and V(D)J recombination

Simkus, C., Bhattacharyya, A., Zhou, M., Veenstra, T. D., & Jones, J. M. (2009) · Immunology · doi:10.1111/j.1365-2567.2009.03101.x · Cited by 19 · see citing works

Recombinase activating gene enzymes of lymphocytes

Notarangelo, L. D., Santagata, S., & VILLA, A. M. (2001) · Current Opinion in Hematology · doi:10.1097/00062752-200101000-00008 · Cited by 17 · see citing works

A Zinc Site in the C-Terminal Domain of RAG1 Is Essential for DNA Cleavage Activity

Gwyn, L. M., Peak, M. M., De, P., Rahman, N. S., & Rodgers, K. K. (2009) · Journal of Molecular Biology · doi:10.1016/j.jmb.2009.05.076 · Cited by 16 · see citing works

Molecular cloning, mapping and characterization of a novel mouse RING finger gene, Mrf1

Chang, R., Xu, X., & Li, M. D. (2002) · Gene · doi:10.1016/s0378-1119(02)00603-0 · Cited by 15 · see citing works

Triple arginines as molecular determinants for pentameric assembly of the intracellular domain of 5-HT3A receptors

Pandhare, A., Pirayesh, E., Stuebler, A. G., & Jansen, M. (2019) · The Journal of General Physiology · doi:10.1085/jgp.201912421 · Cited by 9 · see citing works

Recombination-activating gene 1 and 2 (RAG1 and RAG2) in flounder (Paralichthys olivaceus)

Wang, X., Tan, X., Zhang, P., Zhang, Y., & Xu, P. (2014) · Journal of Biosciences · doi:10.1007/s12038-014-9469-1 · Cited by 8 · see citing works

Znc2 module of RAG1 contributes towards structure-specific nuclease activity of RAGs

Nilavar, N. M., Nishana, M., Paranjape, A. M., Mahadeva, R., Kumari, R., Choudhary, B., & Raghavan, S. C. (2020) · Biochemical Journal · doi:10.1042/bcj20200361 · Cited by 7 · see citing works

Analysis of diabetic vitreopathy with dynamic light scattering spectroscopy – problems and solutions related to photon correlation

Fankhauser, F. (2012) · Acta Ophthalmologica · doi:10.1111/j.1755-3768.2011.02308.x · Cited by 7 · see citing works

An interdomain boundary in RAG1 facilitates cooperative binding to RAG2 in formation of the V(D)J recombinase complex

Byrum, J. N., Zhao, S., Rahman, N. S., Gwyn, L. M., Rodgers, W., & Rodgers, K. K. (2015) · Protein Science · doi:10.1002/pro.2660 · Cited by 7 · see citing works

Zinc as a structural and folding element of proteins which interact with DNA

Junker, M., Rodgers, K. K., & Coleman, J. E. (1998) · Inorganica Chimica Acta · doi:10.1016/s0020-1693(98)00128-5 · Cited by 6 · see citing works

The Mechanism, Regulation and Evolution of V(D)J Recombination

Schatz, D. G., Zhang, Y., Xiao, J., Zha, S., Zhang, Y., & Alt, F. W. (2024) · Elsevier eBooks · doi:10.1016/b978-0-323-95895-0.00004-0 · Cited by 5 · see citing works

The Mechanism of V(D)J Recombination

Sekiguchi, J., Alt, F. W., & Oettinger, M. A. (2004) · Elsevier eBooks · doi:10.1016/b978-012053641-2/50006-x · Cited by 5 · see citing works

Different sea urchin RAG-like genes were domesticated to carry out different functions

Yakovenko, I., Tobi, D., Ner‐Gaon, H., & Oren, M. (2023) · Frontiers in Immunology · doi:10.3389/fimmu.2022.1066510 · Cited by 4 · see citing works

SEQUENCE CLONING AND EXPRESSION ANALYSIS OF RECOMBINATION ACTIVATING GENE 1 AND 2 (rag1 AND rag2) IN GRASS CARP, CTENOPHARYNGODON IDELLUS

ZHANG, Q.-Y., Si-Gang, F. A. N., & Luo, C. (2009) · Acta Hydrobiologica Sinica · doi:10.3724/sp.j.1035.2009.50795 · Cited by 4 · see citing works

RAG MUTATIONS IN SEVERE COMBINED IMMUNODEFICIENCY AND OMENN'S SYNDROME

Schwarz, K., & VILLA, A. M. (2000) · Immunology and Allergy Clinics of North America · doi:10.1016/s0889-8561(05)70138-7 · Cited by 4 · see citing works

Metal-dependent structure and self association of the RAG1 zinc-binding domain

Rodgers, K. K., & Fleming, K. G. (1997) · Techniques in protein chemistry · doi:10.1016/s1080-8914(97)80057-9 · Cited by 4 · see citing works

Generating combinatorial diversity via engineered V(D)J-like recombination in Saccharomyces cerevisiae

Cazier, A. P., Son, J., Yellayi, S., Chávez, L. S., Young, C., Irvin, O. M., Abraham, H., Dalvi, S., & Blazeck, J. (2025) · Nature Communications · doi:10.1038/s41467-025-61206-1 · Cited by 3 · see citing works

Analytical biotechnology

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Urea/NaOH aqueous solution as new solvent of aeromonas gum

Xu, X., Zhang, L., & Zhang, Y. (2005) · Journal of Applied Polymer Science · doi:10.1002/app.21726 · Cited by 2 · see citing works

RAG1 oligomerization states and secondary structural properties: an initial characterization of V(D)J recombinase complex formation

Godderz, L. J., & Rodgers, K. K. (2004) · Journal of Spectroscopy · doi:10.1155/2004/572415 · Cited by 2 · see citing works

Catalytic RAG1 mutants obstruct V(D)J recombination in vitro and in vivo

Furusawa, T., Hosoe, M., Ohkoshi, K., Takahashi, S., Kiyokawa, N., Fujimoto, J., Amemiya, H., Suzuki, S., & Tokunaga, T. (2003) · Molecular Immunology · doi:10.1016/s0161-5890(03)00008-7 · Cited by 2 · see citing works

Angeborene Immundefekte

Schwarz, K., Fugmann, S. D., Pannicke, U., & Bartram, C. R. (1999) · Springer eBooks · doi:10.1007/978-3-662-07865-5_2 · Cited by 2 · see citing works

Equine arteritis virus Nsp10 promotes MAVS proteasomal degradation via E3 ligases Smurf1/MARCH5

Zhou, B., Chen, K., Liang, H., 戚亭, Guo, X., Wen, Y., Du, C., & Wang, X. (2026) · Journal of Virology · doi:10.1128/jvi.02061-25 · Cited by 1 · see citing works

Remdesivir may hinder the function of Recombination Activating Gene-1 (RAG1)

Lakshmanan, M., & Shabeer Ali, H. (2023) · Medical Hypotheses · doi:10.1016/j.mehy.2023.111228 · Cited by 1 · see citing works

The Role of RAG in V(D)J Recombination

Carmona, L. M., & Schatz, D. G. (2016) · Elsevier eBooks · doi:10.1016/b978-0-12-374279-7.05012-8 · Cited by 1 · see citing works

DNA Repair and the Generation of Immune Diversity

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RNA editing in African trypanosomes requires a 3' nucleotidyl phosphatase - the biochemical consequences of the exoUase activity of TbMP42

Niemann, M. (2008) · Technischen Universität Darmstadt · doi:10.26083/tuprints-00001061

An investigation of the zinc binding characteristics of the RING finger domain from the human RBBP6 protein using heteronuclear NMR spectroscopy.

Mulaudzi, T. (2007) · University of the Western Cape Electronic Theses and Dissertations Repository (University of the Western Cape)

Cut-and-run: a new mechanism by which V(D)J recombination could trigger leukaemia and lymphoma

Kirkham, C. M. (2014) · White Rose eTheses Online (University of Leeds, The University of Sheffield, University of York)

RAG MUTATIONS IN SEVERE COMBINED IMMUNODEFICIENCY AND OMENN'S SYNDROME

Schwarz, K., & VILLA, A. M. (2000) · Radiologic Clinics of North America · doi:10.1016/s0033-8389(22)00183-x

The Role of RAG in V(D)J Recombination

Xiao, J., Martin, E. C., Wang, K., & Schatz, D. G. (2024) · Elsevier eBooks · doi:10.1016/b978-0-128-24465-4.00019-3

Metal-dependent structure and self association of the RAG1 zinc-binding domain

Rodgers, K. K., & Fleming, K. G. (1997) · Techniques in protein chemistry · doi:10.1016/s1080-8914(97)80057-9 · Cited by 4 · see citing works

Crystal structure of the RAG1 dimerization domain reveals multiple zinc-binding motifs including a novel zinc binuclear cluster

Bellon, S. F., Rodgers, K. K., Schatz, D. G., Coleman, J. E., & Steitz, T. A. (1997) · Nature Structural Biology · doi:10.1038/nsb0797-586 · Cited by 149 · see citing works

J. Mol. Biol. (1996) 260, 70--84 A Zinc-binding Domain Involved in the Dimerization

Karla, O. R., Rodgers, K. K., Bu, Z., Fleming, K. G., Schatz, D. G., Engelman, D. M., & Coleman, J. E. (2007)

Putting the pieces together: identification and characterization of structural domains in the V(D)J recombination protein RAG1

De, P., & Rodgers, K. K. (2004) · Immunological Reviews · doi:10.1111/j.0105-2896.2004.00154.x · Cited by 50 · see citing works

A dimer of the lymphoid protein RAG1 recognizes the recombination signal sequence and the complex stably incorporates the high mobility group protein HMG2

Rodgers, K. K. (1999) · Nucleic Acids Research · doi:10.1093/nar/27.14.2938 · Cited by 65 · see citing works