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Solution structure of the DNA- and RPA-binding domain of the human repair factor XPA
Abstract
The solution structure of the central domain of the human nucleotide excision repair protein XPA, which binds to damaged DNA and replication protein A (RPA), was determined by nuclear magnetic resonance (NMR) spectroscopy. The central domain consists of a zinc-containing subdomain and a C-terminal subdomain. The zinc-containing subdomain has a compact globular structure and is distinct from the zinc-fingers found in transcription factors. The C-terminal subdomain folds into a novel alpha/beta structure with a positively charged superficial cleft. From the NMR spectra of the complexes, DNA and RPA binding surfaces are suggested.
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“Hilton et al. recently demonstrated that in binding to ds-ssDNA junctions XPA employs a larger DNA-binding domain 102 than was previously described for repair substrates 103, 104.”
From Xeroderma Pigmentosa Group A (XPA), Nucleotide Excision Repair and Regulation by ATR in Response to Ultraviolet Irradiation (2017) · cites this paper as [104]
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Cites
MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures
Kraulis, P. J. (1991) · Journal of Applied Crystallography · doi:10.1107/s0021889891004399 · Cited by 14,011
MOLMOL: A program for display and analysis of macromolecular structures
Koradi, R., Billeter, M., & Wüthrich, K. (1996) · Journal of Molecular Graphics · doi:10.1016/0263-7855(96)00009-4 · Cited by 7,156
AQUA and PROCHECK-NMR: Programs for checking the quality of protein structures solved by NMR
Laskowski, R., Rullmann, J. A., MacArthur, M., Kaptein, R., & Thornton, J. (1996) · Journal of Biomolecular NMR · doi:10.1007/bf00228148 · Cited by 5,502
Nicholls, A. O., Sharp, K. A., & Honig, B. H. (1991) · Proteins Structure Function and Bioinformatics · doi:10.1002/prot.340110407 · Cited by 5,230
Raster3D Version 2.0. A program for photorealistic molecular graphics
Merritt, E. A., & Murphy, M. E. P. (1994) · Acta Crystallographica Section D Biological Crystallography · doi:10.1107/s0907444994006396 · Cited by 2,493
Mammalian DNA nucleotide excision repair reconstituted with purified protein components
Aboussekhra, A., Biggerstaff, M., Shivji, M. K. K., Vilpo, J. A., Moncollin, V., Podust, V. N., Protić, M., Hübscher, U., Egly, J.-M., & Wood, R. D. (1995) · Cell · doi:10.1016/0092-8674(95)90289-9 · Cited by 837
Structure of the single-stranded-DNA-binding domain of replication protein A bound to DNA
Bochkarev, A. V., Pfuetzner, R. A., Edwards, A. M., & Frappier, L. (1997) · Nature · doi:10.1038/385176a0 · Cited by 559
Proposed structure for the zinc-binding domains from transcription factor IIIA and related proteins.
Berg, J. M. (1988) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.85.1.99 · Cited by 412
RPA involvement in the damage-recognition and incision steps of nucleotide excision repair
He, Z., Henricksen, L. A., Wold, M. S., & Ingles, C. J. (1995) · Nature · doi:10.1038/374566a0 · Cited by 389
Tanaka, K., Miura, N., Satokata, I., Miyamoto, I., Yoshida, M. C., Satoh, Y., Kondo, S., Yasui, A., Okayama, H., & Okada, Y. (1990) · Nature · doi:10.1038/348073a0 · Cited by 388
Self-citationReaction Mechanism of Human DNA Repair Excision Nuclease
Mu, D., Hsu, D. S., & Sancar, A. (1996) · Journal of Biological Chemistry · doi:10.1074/jbc.271.14.8285 · Cited by 374
Specific association between the human DNA repair proteins XPA and ERCC1.
Li, L., Elledge, S. J., Peterson, C. A., Bales, E. S., & Legerski, R. J. (1994) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.91.11.5012 · Cited by 303
Preferential binding of the xeroderma pigmentosum group A complementing protein to damaged DNA
Jones, C. J., & Wood, R. D. (1993) · Biochemistry · doi:10.1021/bi00096a021 · Cited by 291
Li, L., Lu, X., Peterson, C. A., & Legerski, R. J. (1995) · Molecular and Cellular Biology · doi:10.1128/mcb.15.10.5396 · Cited by 252
Moggs, J. G., Yarema, K. J., Essigmann, J. M., & Wood, R. D. (1996) · Journal of Biological Chemistry · doi:10.1074/jbc.271.12.7177 · Cited by 205
Robins, P., Jones, C. J., Biggerstaff, M., Lindahl, T. L., & Wood, R. D. (1991) · The EMBO Journal · doi:10.1002/j.1460-2075.1991.tb04961.x · Cited by 201
Park, C.-H., Mu, D., Reardon, J. T., & Sancar, A. (1995) · Journal of Biological Chemistry · doi:10.1074/jbc.270.9.4896 · Cited by 191
The XPA protein is a zinc metalloprotein with an ability to recognize various kinds of DNA damage
Asahina, H., Kuraoka, I., Shirakawa, M., Morita, E. H., Miura, N., Miyamoto, I., Ohtsuka, E., Okada, Y., & Tanaka, K. (1994) · Mutation Research/DNA Repair · doi:10.1016/0921-8777(94)90034-5 · Cited by 156
Self-citationMutations in XPA That Prevent Association with ERCC1 Are Defective in Nucleotide Excision Repair
Li, L., Peterson, C. A., Lu, X., & Legerski, R. J. (1995) · Molecular and Cellular Biology · doi:10.1128/mcb.15.4.1993 · Cited by 135
DNA Damage Recognition by XPA Protein Promotes Efficient Recruitment of Transcription Factor II H
Nocentini, S., Coin, F., Saijo, M., Tanaka, K., & Egly, J. (1997) · Journal of Biological Chemistry · doi:10.1074/jbc.272.37.22991 · Cited by 109
Self-citationIdentification of a damaged-DNA binding domain of the XPA protein
Kuraoka, I., Morita, E. H., Saijo, M., Matsuda, T., Morikawa, K., Shirakawa, M., & Tanaka, K. (1996) · Mutation Research/DNA Repair · doi:10.1016/0921-8777(95)00038-0 · Cited by 106
Self-citationHu, J., Grzesiek, S., & Bax, A. (1997) · Journal of the American Chemical Society · doi:10.1021/ja963625z · Cited by 99
Sequential binding of DNA repair proteins RPA and ERCC1 to XPA in vitro
Saijo, M. (1996) · Nucleic Acids Research · doi:10.1093/nar/24.23.4719 · Cited by 98
Self-citationEnhancement of Damage-Specific DNA Binding of XPA by Interaction with the ERCC1 DNA Repair Protein
Nagai, A., Saijo, M., Kuraoka, I., Matsuda, T., Kodo, N., Nakatsu, Y., Mimaki, T., Mino, M., Biggerstaff, M., Wood, R. D., et al. (1995) · Biochemical and Biophysical Research Communications · doi:10.1006/bbrc.1995.1905 · Cited by 61
Self-citationImplications of the zinc‐finger motif found in the DNA‐binding domain of the human XPA protein
Morita, E. H., Ohkubo, T., Kuraoka, I., Shirakawa, M., Tanaka, K., & Morikawa, K. (1996) · Genes to Cells · doi:10.1046/j.1365-2443.1996.d01-252.x · Cited by 42
Self-citationGenomic characterization of the human DNA excision repair-controlling geneXPAC
Satokata, I., Iwai, K., Matsuda, T., Yoshio, O., & Tanaka, K. (1993) · Gene · doi:10.1016/0378-1119(93)90493-m · Cited by 30
Self-citationHu, W., & Zuiderweg, E. R. P. (1996) · Journal of Magnetic Resonance Series B · doi:10.1006/jmrb.1996.0157 · Cited by 15
Research works printed but not linked: 1
- Blake P.R., 1994, Adv. Biophys. Chem., 4, 1
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Metadata
- Authors
- Ikegami, T., Kuraoka, I., Saijo, M., Kodo, N., Kyogoku, Y., Morikawa, K., Tanaka, K., & Shirakawa, M.
- Affiliations
- Nara Institute of Science and Technology (JP)
- The University of Osaka (JP)
- Institute for Protein Research, The University of Osaka (JP)
- Biomolecular Engineering Research Institute (Japan) (JP)
- Corresponding author
- Shirakawa, Masahiro
- Venue
- Nature Structural & Molecular Biology
- Published
- 1998-08
- Volume
- 5
- Issue
- 8
- Pages
- 701-706
- ISSN
- 1545-9985 (ISSN-L)
- 1545-9993
- DOI
- 10.1038/1400
- OpenAlex
- W2020761966
- Cited by
- 139
- References
- 27
- Citations by year
- 2026: 2 · 2025: 1 · 2024: 3 · 2023: 4 · 2022: 3 · 2021: 2 · 2020: 4 · 2019: 8 · 2018: 5 · 2017: 8 · 2016: 7 · 2015: 4 · 2014: 9 · 2013: 2 · 2012: 2
- FWCI
- 2.44
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Nature Structural & Molecular Biology (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA Repair Mechanisms
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Structural Biology › Enzyme Structure and Function
- Keywords
- XPA, nucleotide excision repair, DNA repair, replication protein A, DNA binding, alpha/beta fold, protein structure, solution structure, protein-DNA complex
- MeSH terms
- Amino Acid Sequence, Binding Sites, DNA Repair, DNA-Binding Proteins, Humans, Metalloproteins, Models, Molecular, Molecular Sequence Data, Protein Conformation, Xeroderma Pigmentosum, Zinc, RNA-Binding Proteins, Sequence Homology, Amino Acid, Nuclear Magnetic Resonance, Biomolecular, Replication Protein A, Xeroderma Pigmentosum Group A Protein
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