Items where Subject is "DNA binding protein"

Paper

Abate, C., Baker, S. J., Lees-Miller, S. P., Anderson, C. W., Marshak, D. R., Curran, T. (July 1993) Dimerization and DNA-Binding Alter Phosphorylation of Fos and Jun. Proc Natl Acad Sci U S A, 90 (14). pp. 6766-6770. ISSN 0027-8424

Abraham, S. E., Lobo, S., Yaciuk, P., Wang, H. G., Moran, E. (June 1993) p300, and p300-associated proteins, are components of TATA-binding protein (TBP) complexes. Oncogene, 8 (6). pp. 1639-47. ISSN 0950-9232

Assamunt, N., Mortishiresmith, R. J., Aurora, R., Herr, W., Wright, P. E. (April 1993) The Solution Structure of the Oct-1 Pou-Specific Domain Reveals a Striking Similarity to the Bacteriophage-Lambda Repressor DNA-Binding Domain. Cell, 73 (1). pp. 193-205. ISSN 0092-8674

Attar, R., Gilman, M. (January 1993) Cloning of a Novel C-Fos Sre-Binding Protein. Journal of Cellular Biochemistry, 53 (17A). p. 100. ISSN 0730-2312

Aurora, R., Herr, W. (1991) Oct-1 Binds to Diverse Target Sequences through Interactions with Multiple Regions of the Pou-Domain. Journal of Cellular Biochemistry, 47 (Suppl ). p. 170.

Aurora, R., Herr, W. (February 1992) Segments of the POU domain influence one another's DNA-binding specificity. Mol Cell Biol, 12 (2). pp. 455-67. ISSN 0270-7306 (Print)0270-7306 (Linking)

Babb, R., Cleary, M. A., Herr, W. (December 1997) OCA-B is a functional analog of VP16 but targets a separate surface of the Oct-1 POU domain. Molecular and Cellular Biology, 17 (12). pp. 7295-305. ISSN 0270-7306 (Print)

Babb, R., Huang, C. C., Aufiero, D. J., Herr, W. (July 2001) DNA recognition by the herpes simplex virus transactivator VP16: a novel DNA-Binding structure. Molecular and Cellular Biology, 21 (14). pp. 4700-4712. ISSN 0270-7306

Baker, S. J., Kerppola, T. K., Luk, D., Vandenberg, M. T., Marshak, D. R., Curran, T., Abate, C. (October 1992) Jun Is Phosphorylated by Several Protein-Kinases at the Same Sites That Are Modified in Serum-Stimulated Fibroblasts. Molecular and Cellular Biology, 12 (10). pp. 4694-4705. ISSN 0270-7306

Ballard, D. W., Lowenthal, J. W., Bohnlein, E., Franza, B. R., Greene, W. C. (April 1989) Transcriptional Activation of the Interleukin-2 Receptor-Alpha Gene Is Coordinately Regulated by Multiple Inducible and Constitutive DNA-Binding Proteins. Clinical Research, 37 (2). A555-A555. ISSN 0009-9279

Bargonetti, J., Manfredi, J. J., Chen, X. B., Marshak, D. R., Prives, C. (December 1993) A Proteolytic Fragment from the Central Region of P53 Has Marked Sequence-Specific DNA-Binding Activity When Generated from Wild-Type but Not from Oncogenic Mutant P53-Protein. Genes Dev, 7 (12B). pp. 2565-2574. ISSN 0890-9369

Barr, M. M., Tu, H., Van Aelst, L., Wigler, M. H. (October 1996) Identification of Ste4 as a potential regulator of Byr2 in the sexual response pathway of Schizosaccharomyces pombe. Mol Cell Biol, 16 (10). pp. 5597-603. ISSN 0270-7306 (Print)

Basu, A., Dong, B., Krainer, A. R., Howe, C. C. (February 1997) The intracisternal A-particle proximal enhancer-binding protein activates transcription and is identical to the RNA- and DNA-binding protein p54nrb/NonO. Molecular and Cellular Biology, 17 (2). pp. 677-86. ISSN 0270-7306 (Print)0270-7306

Baumruker, T., Sturm, R., Herr, W. (November 1988) OBP100 binds remarkably degenerate octamer motifs through specific interactions with flanking sequences. Genes Dev, 2 (11). pp. 1400-13. ISSN 0890-9369

Bennett, C. F., Spector, D. L., Yeoman, L. C. (February 1986) Nonhistone protein BA is a glutathione S-transferase localized to interchromatinic regions of the cell nucleus. Journal of Cell Biology, 102 (2). pp. 600-9. ISSN 0021-9525

Berg, M., Stenlund, A. (May 1997) Functional interactions between papillomavirus E1 and E2 proteins. J Virol, 71 (5). pp. 3853-63. ISSN 0022-538X (Print)

Bhagwat, A. S., Vakoc, C. R. (September 2015) Targeting Transcription Factors in Cancer. Trends Cancer, 1 (1). pp. 53-65. ISSN 2405-8033 (Print)

Birney, E., Kumar, S., Krainer, A. R. (September 1992) A putative homolog of U2AF65 in S. cerevisiae. Nucleic Acids Research, 20 (17). p. 4663. ISSN 0305-1048

Bogenhagen, D. F., Wang, Y. S., Shen, E. L., Kobayashi, R. (November 2003) Protein components of mitochondrial DNA nucleoids in higher eukaryotes. Molecular & Cellular Proteomics, 2 (11). pp. 1205-1216. ISSN 1535-9476

Bolduc, N., Hake, S., Jackson, D. (2008) Dual functions of the KNOTTED1 homeodomain: sequence-specific DNA binding and regulation of cell-to-cell transport. Science Signaling, 1 (23). pe28.

Brown, G. W., Melendy, T., Ray, D. S. (June 1993) Replication Protein-a from the Trypanosomatid Crithidia-Fasciculata Is Inactive in the Primosome Assembly Step of Sv40 DNA-Replication. Molecular and Biochemical Parasitology, 59 (2). pp. 323-325. ISSN 0166-6851

Brown, G. W., Melendy, T. E., Ray, D. S. (November 1992) Conservation of structure and function of DNA replication protein A in the trypanosomatid Crithidia fasciculata. Proc Natl Acad Sci U S A, 89 (21). pp. 10227-31. ISSN 0027-8424 (Print)0027-8424 (Linking)

Buchkovich, K., Dyson, N., Whyte, P., Harlow, E. (1990) Cellular proteins that are targets for transformation by DNA tumour viruses. Ciba Found Symp, 150. 262-71; discussion 271. ISSN 0300-5208 (Print)0300-5208 (Linking)

Caligiuri, M., Beach, D. (February 1993) Sct1 functions in partnership with Cdc10 in a transcription complex that activates cell cycle START and inhibits differentiation. Cell, 72 (4). pp. 607-19. ISSN 0092-8674 (Print)

Caligiuri, M., Connolly, T., Beach, D. (June 1997) Ran1 functions to control the Cdc10/Sct1 complex through Puc1. Molecular Biology of the Cell, 8 (6). pp. 1117-28. ISSN 1059-1524 (Print)

Chen, G., Stenlund, A. (April 1998) Characterization of the DNA-binding domain of the bovine papillomavirus replication initiator E1. J Virol, 72 (4). pp. 2567-76. ISSN 0022-538X (Print)

Chen, G., Stenlund, A. (January 2001) The E1 initiator recognizes multiple overlapping sites in the papillomavirus origin of DNA replication. Journal of Virology, 75 (1). pp. 292-302. ISSN 0022-538X

Chen, G., Stenlund, A. (February 2000) Two patches of amino acids on the E2 DNA binding domain define the surface for interaction with E1. Journal of Virology, 74 (3). pp. 1506-1512. ISSN 0022-538X

Chi, P., Chen, Y., Zhang, L., Guo, X., Wongvipat, J., Shamu, T., Fletcher, J. A., Dewell, S., Maki, R. G., Zheng, D., Antonescu, C. R., Allis, C. D., Sawyers, C. L. (October 2010) ETV1 is a lineage survival factor that cooperates with KIT in gastrointestinal stromal tumours. Nature, 467 (7317). pp. 849-53. ISSN 1476-4687 (Electronic)0028-0836 (Linking)

Chiang, C. M., Ustav, M., Stenlund, A., Ho, T. F., Broker, T. R., Chow, L. T. (July 1992) Viral-E1 and Viral-E2 Proteins Support Replication of Homologous and Heterologous Papillomaviral Origins. Proceedings of the National Academy of Sciences of the United States of America, 89 (13). pp. 5799-5803. ISSN 0027-8424

Chow, L. T., Broker, T. R., Lewis, J. B. (October 1979) Complex splicing patterns of RNAs from the early regions of adenovirus-2. J Mol Biol, 134 (2). pp. 265-303. ISSN 0022-2836 (Print)0022-2836 (Linking)

Cleary, M. A., Herr, W. (April 1995) Mechanisms for flexibility in DNA sequence recognition and VP16-induced complex formation by the Oct-1 POU domain. Mol Cell Biol, 15 (4). pp. 2090-100. ISSN 0270-7306 (Print)

Cleary, M. A., Pendergrast, P. S., Herr, W. (August 1997) Structural flexibility in transcription complex formation revealed by protein-DNA photocrosslinking. Proceedings of the National Academy of Sciences, 94 (16). pp. 8450-5. ISSN 0027-8424 (Print)

Cleary, M. A., Stern, S., Tanaka, M., Herr, W. (January 1993) Differential positive control by Oct-1 and Oct-2: activation of a transcriptionally silent motif through Oct-1 and VP16 corecruitment. Genes Dev, 7 (1). pp. 72-83. ISSN 0890-9369 (Print)

Cole, C. N., Hammell, C. M. (1998) Nucleocytoplasmic transport: Driving and directing transport. Current Biology, 8 (11). R368-R372. ISSN 09609822 (ISSN)

Cowan, G. M., Gann, A. A., Murray, N. E. (January 1989) Conservation of complex DNA recognition domains between families of restriction enzymes. Cell, 56 (1). pp. 103-9. ISSN 0092-8674 (Print)0092-8674

Dallas, P. B., Pacchione, S., Wilsker, D., Bowrin, V., Kobayashi, R., Moran, E. (May 2000) The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. Molecular and Cellular Biology, 20 (9). pp. 3137-3146. ISSN 0270-7306

Das, G., Herr, W. (November 1993) Enhanced activation of the human histone H2B promoter by an Oct-1 variant generated by alternative splicing. J Biol Chem, 268 (33). pp. 25026-32. ISSN 0021-9258 (Print)

Das, G., Hinkley, C. S., Herr, W. (April 1995) Basal promoter elements as a selective determinant of transcriptional activator function. Nature, 374 (6523). pp. 657-60. ISSN 0028-0836 (Print)

Davey, S., Beach, D. (October 1995) RACH2, a novel human gene that complements a fission yeast cell cycle checkpoint mutation. Mol Biol Cell, 6 (10). pp. 1411-21. ISSN 1059-1524 (Print)

Devlin, C., Tice-Baldwin, K., Shore, D., Arndt, K. T. (July 1991) RAP1 is required for BAS1/BAS2- and GCN4-dependent transcription of the yeast HIS4 gene. Mol Cell Biol, 11 (7). pp. 3642-51. ISSN 0270-7306 (Print)0270-7306 (Linking)

Di Como, C. J., Bose, R., Arndt, K. T. (January 1995) Overexpression of SIS2, which contains an extremely acidic region, increases the expression of SWI4, CLN1 and CLN2 in sit4 mutants. Genetics, 139 (1). pp. 95-107. ISSN 0016-6731 (Print)

Diffley, J. F., Stillman, B. (February 1992) DNA binding properties of an HMG1-related protein from yeast mitochondria. Journal of Biological Chemistry, 267 (5). pp. 3368-74. ISSN 0021-9258

Diffley, J. F., Stillman, B. (May 1986) Purification of a cellular, double-stranded DNA-binding protein required for initiation of adenovirus DNA replication by using a rapid filter-binding assay. Molecular and Cellular Biology, 6 (5). pp. 1363-73. ISSN 0270-7306

Diffley, J. F., Stillman, B. (April 1988) Purification of a yeast protein that binds to origins of DNA replication and a transcriptional silencer. Proceedings of the National Academy of Sciences of the United States of America, 85 (7). pp. 2120-4. ISSN 0027-8424

Diffley, J. F., Stillman, B. (September 1991) A close relative of the nuclear, chromosomal high-mobility group protein HMG1 in yeast mitochondria. Proceedings of the National Academy of Sciences of the United States of America, 88 (17). pp. 7864-8. ISSN 0027-8424

Diffley, J. F. X., Stillman, B. (1989) Origin Binding Proteins from Yeast. Journal of Cellular Biochemistry, 41 (S13D). p. 152. ISSN 0730-2312

Diffley, J. F. X., Stillman, B. W. (1986) Characterization of Protein Which Binds Specifically to a Putative Origin of Cellular DNA-Replication. Journal of Cellular Biochemistry, 32 (S10B). p. 229. ISSN 0730-2312

Dubey, A. K., Roberts, R. J. (June 1992) Sequence-specific DNA binding by the MspI DNA methyltransferase. Nucleic Acids Res, 20 (12). pp. 3167-73. ISSN 0305-1048 (Print)0305-1048 (Linking)

Dubnau, J. T., Struhl, G. (February 1996) RNA recognition and translational regulation by a homeodomain protein. Nature, 379 (6567). pp. 694-9.

Fan, H. Y., Hu, Y., Tudor, M., Ma, H. (November 1997) Specific interactions between the K domains of AG and AGLs, members of the MADS domain family of DNA binding proteins. Plant Journal, 12 (5). pp. 999-1010. ISSN 0960-7412

Ford, E., Hernandez, N. (June 1997) Characterization of a trimeric complex containing Oct-1, SNAPc, and DNA. Journal of Biological Chemistry, 272 (25). pp. 16048-55. ISSN 0021-9258

Ford, E., Strubin, M., Hernandez, N. (November 1998) The Oct-1 POU domain activates snRNA gene transcription by contacting a region in the SNAPc largest subunit that bears sequence similarities to the Oct-1 coactivator OBF-1. Genes and Development, 12 (22). pp. 3528-40. ISSN 08909369 (ISSN)

Freiman, R. N., Herr, W. (December 1997) Viral mimicry: common mode of association with HCF by VP16 and the cellular protein LZIP. Genes and Development, 11 (23). pp. 3122-7. ISSN 08909369 (ISSN)

Grossman, J. S., Meyer, M. I., Wang, Y. C., Mulligan, G. J., Kobayashi, R., Helfman, D. M. (June 1998) The use of antibodies to the polypyrimidine tract binding protein (PTB) to analyze the protein components that assemble on alternatively spliced pre-mRNAs that use distant branch points. Rna, 4 (6). pp. 613-25. ISSN 1355-8382 (Print)

Grotewold, E., Athma, P., Peterson, T. (June 1991) Alternatively spliced products of the maize P gene encode proteins with homology to the DNA-binding domain of myb-like transcription factors. Proc Natl Acad Sci U S A, 88 (11). pp. 4587-91. ISSN 0027-8424 (Print)0027-8424 (Linking)

Grotewold, E., Drummond, B. J., Bowen, B., Peterson, T. (February 1994) The myb-homologous P gene controls phlobaphene pigmentation in maize floral organs by directly activating a flavonoid biosynthetic gene subset. Cell, 76 (3). pp. 543-53. ISSN 0092-8674 (Print)

Grueneberg, D. A., Natesan, S., Alexandre, C., Gilman, M. Z. (August 1992) Human and Drosophila homeodomain proteins that enhance the DNA-binding activity of serum response factor. Science, 257 (5073). pp. 1089-95. ISSN 0036-8075 (Print)0036-8075 (Linking)

Guertin, M. J., Martins, A. L., Siepel, A., Lis, J. T. (2012) Accurate prediction of inducible transcription factor binding intensities in vivo. PLoS Genet, 8 (3). e1002610. ISSN 1553-7390

Guo, Ya, Xu, Quan, Canzio, Daniele, Shou, Jia, Li, Jinhuan, Gorkin, David U, Jung, Inkyung, Wu, Haiyang, Zhai, Yanan, Tang, Yuanxiao, Lu, Yichao, Wu, Yonghu, Jia, Zhilian, Li, Wei, Zhang, Michael Q, Ren, Bing, Krainer, Adrian R, Maniatis, Tom, Wu, Qiang (2015) CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function. Cell, 162 (4). pp. 900-910. ISSN 0092-8674

Hanakahi, L. A., Bartlet-Jones, M., Chappell, C., Pappin, D., West, S. C. (September 2000) Binding of inositol phosphate to DNA-PK and stimulation of double-strand break repair. Cell, 102 (6). pp. 721-9. ISSN 0092-8674 (Print)0092-8674 (Linking)

Harrington, L., Hull, C., Crittenden, J., Greider, C. (April 1995) Gel shift and UV cross-linking analysis of Tetrahymena telomerase. J Biol Chem, 270 (15). pp. 8893-901. ISSN 0021-9258 (Print)

Henry, R. W., Sadowski, C. L., Kobayashi, R., Hernandez, N. (April 1995) A TBP-TAF complex required for transcription of human snRNA genes by RNA polymerase II and III. Nature, 374 (6523). pp. 653-6. ISSN 0028-0836 (Print)

Herr, W. (1998) The herpes simplex virus VP16-induced complex: mechanisms of combinatorial transcriptional regulation. Cold Spring Harbor Symposia on Quantitative Biology, 63. pp. 599-607. ISSN 00917451 (ISSN)

Herr, W., Cleary, M. A. (July 1995) The POU domain: versatility in transcriptional regulation by a flexible two-in-one DNA-binding domain. Genes Dev, 9 (14). pp. 1679-93. ISSN 0890-9369 (Print)

Herr, W., Sturm, R. A., Clerc, R. G., Corcoran, L. M., Baltimore, D., Sharp, P. A., Ingraham, H. A., Rosenfeld, M. G., Finney, M., Ruvkun, G. (December 1988) The POU domain: a large conserved region in the mammalian pit-1, oct-1, oct-2, and Caenorhabditis elegans unc-86 gene products. Genes Dev, 2 (12A). pp. 1513-6. ISSN 0890-9369

Hirano, M., Hirano, T. (December 1998) ATP-dependent aggregation of single-stranded DNA by a bacterial SMC homodimer. Embo Journal, 17 (23). pp. 7139-48. ISSN 0261-4189

Hirano, T. (September 1999) [Evolutionary insights into chromosome condensation]. Tanpakushitsu Kakusan Koso, 44 (12 Sup). pp. 1698-702. ISSN 0039-9450 (Print)

Hirano, T. (January 1999) SMC-mediated chromosome mechanics: a conserved scheme from bacteria to vertebrates? Genes and Development, 13 (1). pp. 11-9. ISSN 0890-9369 (Print)

Hofmann, J. F., Beach, D. (January 1994) cdt1 is an essential target of the Cdc10/Sct1 transcription factor: requirement for DNA replication and inhibition of mitosis. Embo J, 13 (2). pp. 425-34. ISSN 0261-4189 (Print)

Hong, W., Nakazawa, M., Chen, Y. Y., Kori, R., Vakoc, C. R., Rakowski, C., Blobel, G. A. (2005) FOG-1 recruits the NuRD repressor complex to mediate transcriptional repression by GATA-1. Embo Journal, 24 (13). pp. 2367-2378. ISSN 0261-4189

Hu, P., Wu, S., Hernandez, N. (September 2003) A minimal RNA polymerase III transcription system from human cells reveals positive and negative regulatory roles for CK2. Molecular Cell, 12 (3). pp. 699-709. ISSN 1097-2765

Hu, Q. J., Dyson, N., Harlow, E. (April 1990) The regions of the retinoblastoma protein needed for binding to adenovirus E1A or SV40 large T antigen are common sites for mutations. EMBO J, 9 (4). pp. 1147-55. ISSN 0261-4189 (Print)0261-4189 (Linking)

Huang, H., Mizukami, Y., Hu, Y., Ma, H. (October 1993) Isolation and characterization of the binding sequences for the product of the Arabidopsis floral homeotic gene AGAMOUS. Nucleic Acids Res, 21 (20). pp. 4769-76. ISSN 0305-1048 (Print)

Huang, H., Tudor, M., Su, T., Zhang, Y., Hu, Y., Ma, H. (January 1996) DNA binding properties of two Arabidopsis MADS domain proteins: binding consensus and dimer formation. Plant Cell, 8 (1). pp. 81-94. ISSN 1040-4651 (Print)

Huang, H., Tudor, M., Weiss, C. A., Hu, Y., Ma, H. (June 1995) The Arabidopsis MADS-box gene AGL3 is widely expressed and encodes a sequence-specific DNA-binding protein. Plant Mol Biol, 28 (3). pp. 549-67. ISSN 0167-4412 (Print)

Husbands, Aman Y, Feller, Antje, Aggarwal, Vasudha, Dresden, Courtney E, Holub, Ashton S, Ha, Taekjip, Timmermans, Marja CP (March 2023) The START domain potentiates HD-ZIPIII transcriptional activity. The Plant Cell. ISSN 1040-4651

Johnson, L. N., Barford, D. (January 1993) The Effects of Phosphorylation on the Structure and Function of Proteins. Annual Review of Biophysics and Biomolecular Structure, 22. pp. 199-232. ISSN 1056-8700

Kabrun, N., Hodgson, J. W., Doemer, M., Mak, G., Franza, B. R., Enrietto, P. J. (March 1991) Interaction of the v-rel protein with an NF-kappa B DNA binding site. Proc Natl Acad Sci U S A, 88 (5). pp. 1783-7. ISSN 0027-8424 (Print)0027-8424 (Linking)

Kara, N., Hossain, M., Prasanth, S. G., Stillman, B. (May 2015) Orc1 Binding to Mitotic Chromosomes Precedes Spatial Patterning During G1 Phase and Assembly of the Origin Recognition Complex in Human Cells. J Biol Chem, 290 (19). pp. 12355-12369. ISSN 0021-9258

Kelly, M., Burke, J., Smith, M., Klar, A., Beach, D. (May 1988) Four mating-type genes control sexual differentiation in the fission yeast. Embo J, 7 (5). pp. 1537-47. ISSN 0261-4189

Kimura, K., Hirano, M., Kobayashi, R., Hirano, T. (October 1998) Phosphorylation and activation of 13S condensin by Cdc2 in vitro. Science, 282 (5388). pp. 487-90. ISSN 0036-8075 (Print)

Kimura, K., Hirano, T. (August 1997) ATP-dependent positive supercoiling of DNA by 13S condensin: a biochemical implication for chromosome condensation. Cell, 90 (4). pp. 625-34. ISSN 0092-8674 (Print)

Klemm, J. D., Rould, M. A., Aurora, R., Herr, W., Pabo, C. O. (April 1994) Crystal-Structure of the Oct-1 Pou Domain Bound to an Octamer Site - DNA Recognition with Tethered DNA-Binding Modules. Cell, 77 (1). pp. 21-32. ISSN 0092-8674

Klessig, D. F., Grodzicker, T. (1979) Mutations that allow human Ad2 and Ad5 to express late genes in monkey cells map in the viral gene encoding the 72K DNA binding protein. Cell, 17 (4). pp. 957-966.

Klimasauskas, S., Kumar, S., Roberts, R. J., Cheng, X. D. (January 1994) Hhal Methyltransferase Flips Its Target Base out of the DNA Helix. Cell, 76 (2). pp. 357-369. ISSN 0092-8674

Kolman, J. L., Taylor, N., Marshak, D. R., Miller, G. (November 1993) Serine-173 of the Epstein-Barr-Virus Zebra Protein Is Required for DNA-Binding and Is a Target for Casein Kinase-Ii Phosphorylation. Proc Natl Acad Sci U S A, 90 (21). pp. 10115-10119. ISSN 0027-8424

Lai, J. S., Herr, W. (August 1992) Ethidium bromide provides a simple tool for identifying genuine DNA-independent protein associations. Proc Natl Acad Sci U S A, 89 (15). pp. 6958-62. ISSN 0027-8424 (Print)0027-8424 (Linking)

Lai, J. S., Herr, W. (July 1997) Interdigitated residues within a small region of VP16 interact with Oct-1, HCF, and DNA. Molecular and Cellular Biology, 17 (7). pp. 3937-46. ISSN 0270-7306 (Print)

Lee, J. H., Li, Y. C., Doerre, S., Sista, P., Ballard, D. W., Greene, W. C., Franza, B. R. (April 1991) A member of the set of kappa B binding proteins, HIVEN86A, is a product of the human c-rel proto-oncogene. Oncogene, 6 (4). pp. 665-7.

Li, L., Ljung, K., Breton, G., Schmitz, R. J., Pruneda-Paz, J., Cowing-Zitron, C., Cole, B. J., Ivans, L. J., Pedmale, U. V., Jung, H. S., Ecker, J. R., Kay, S. A., Chory, J. (April 2012) Linking photoreceptor excitation to changes in plant architecture. Genes Dev, 26 (8). pp. 785-90. ISSN 0890-9369

Li, R., Knight, J., Bream, G., Stenlund, A., Botchan, M. (April 1989) Specific recognition nucleotides and their DNA context determine the affinity of E2 protein for 17 binding sites in the BPV-1 genome. Genes Dev, 3 (4). pp. 510-26. ISSN 0890-9369 (Print)0890-9369 (Linking)

Li, Z., Cao, R., Wang, M., Myers, M. P., Zhang, Y., Xu, R. M. (July 2006) Structure of a Bmi-1-Ring1B polycomb group ubiquitin ligase complex. J Biol Chem, 281 (29). pp. 20643-9. ISSN 0021-9258 (Print)

Liu, Y., Gong, W., Huang, C. C., Herr, W., Cheng, X. (July 1999) Crystal structure of the conserved core of the herpes simplex virus transcriptional regulatory protein VP16. Genes and Development, 13 (13). pp. 1692-703. ISSN 0890-9369 (Print)

Losada, A., Hirano, M., Hirano, T. (July 1998) Identification of Xenopus SMC protein complexes required for sister chromatid cohesion. Genes and Development , 12 (13). pp. 1986-97. ISSN 0890-9369 (Print)

Mali, P., Aach, J., Lee, J. H., Levner, D., Nip, L., Church, G. M. (May 2013) Barcoding cells using cell-surface programmable DNA-binding domains. Nat Methods, 10 (5). pp. 403-6. ISSN 1548-7105 (Electronic)1548-7091 (Linking)

Manche, L., Green, S. R., Schmedt, C., Mathews, M. B. (November 1992) Interactions between Double-Stranded-Rna Regulators and the Protein-Kinase Dai. Molecular and Cellular Biology, 12 (11). pp. 5238-5248. ISSN 0270-7306

Martienssen, R. (March 2001) Chipping away at chromatin. Nature Genetics, 27 (3). pp. 240-241. ISSN 1061-4036

Martini, E., Roche, D. M., Marheineke, K., Verreault, A., Almouzni, G. (November 1998) Recruitment of phosphorylated chromatin assembly factor 1 to chromatin after UV irradiation of human cells. Journal of Cell Biology, 143 (3). pp. 563-75.

Matsumoto, T., Beach, D. (March 1993) Interaction of the pim1/spi1 mitotic checkpoint with a protein phosphatase. Mol Biol Cell, 4 (3). pp. 337-45. ISSN 1059-1524 (Print)

McLeod, M. (July 1989) Regulation of Meiosis - from DNA-Binding Protein to Protein-Kinase. Bioessays, 11 (1). pp. 9-14. ISSN 0265-9247

McVey, D., Strauss, M., Gluzman, Y. (December 1989) Properties of the DNA-binding domain of the simian virus 40 large T antigen. Molecular & Cellular Biology, 9 (12). pp. 5525-36. ISSN 1098-5549

Melendy, T., Sedman, J., Stenlund, A. (December 1995) Cellular factors required for papillomavirus DNA replication. J Virol, 69 (12). pp. 7857-67. ISSN 0022-538X (Print)

Mi, S., Roberts, R. J. (May 1993) The DNA binding affinity of HhaI methylase is increased by a single amino acid substitution in the catalytic center. Nucleic Acids Res, 21 (10). pp. 2459-64. ISSN 0305-1048 (Print)

Mills, A. A. (January 2017) The Chromodomain Helicase DNA-Binding Chromatin Remodelers: Family Traits that Protect from and Promote Cancer. Cold Spring Harb Perspect Med. ISSN 2157-1422 (Electronic)2157-1422 (Linking)

Mittal, V., Hernandez, N. (February 1997) Role for the amino-terminal region of human TBP in U6 snRNA transcription. Science, 275 (5303). pp. 1136-40. ISSN 0036-8075 (Print)

Mizukami, Y., Huang, H., Tudor, M., Hu, Y., Ma, H. (May 1996) Functional domains of the floral regulator AGAMOUS: characterization of the DNA binding domain and analysis of dominant negative mutations. Plant Cell, 8 (5). pp. 831-45. ISSN 1040-4651 (Print)

Mizukami, Y., Ma, H. (March 1997) Determination of Arabidopsis floral meristem identity by AGAMOUS. Plant Cell, 9 (3). pp. 393-408. ISSN 1040-4651 (Print)

Mizukami, Y., Ma, H. (August 1995) Separation of AG function in floral meristem determinacy from that in reproductive organ identity by expressing antisense AG RNA. Plant Mol Biol, 28 (5). pp. 767-84. ISSN 0167-4412 (Print)

Moran, E. (February 1993) DNA tumor virus transforming proteins and the cell cycle. Curr Opin Genet Dev, 3 (1). pp. 63-70. ISSN 0959-437X (Print)

Moran, E. (July 1993) Interaction of adenoviral proteins with pRB and p53. Faseb J, 7 (10). pp. 880-5. ISSN 0892-6638 (Print)

Natesan, S., Gilman, M. Z. (December 1993) DNA bending and orientation-dependent function of YY1 in the c-fos promoter. Genes Dev, 7 (12B). pp. 2497-509. ISSN 0890-9369 (Print)

Neuwald, A. F., Poleksic, A. (September 2000) PSI-BLAST searches using hidden Markov models of structural repeats: prediction of an unusual sliding DNA clamp and of beta-propellers in UV-damaged DNA-binding protein. Nucleic Acids Research, 28 (18). pp. 3570-3580. ISSN 0305-1048

Ono, T., Losada, A., Hirano, M., Myers, M. P., Neuwald, A. F., Hirano, T. (October 2003) Differential contributions of condensin I and condensin II to mitotic chromosome architecture in vertebrate cells. Cell, 115 (1). pp. 109-121. ISSN 0092-8674

Pendergrast, P. S., Morrison, D., Tansey, W. P., Hernandez, N. (August 1996) Mutations in the carboxy-terminal domain of TBP affect the synthesis of human immunodeficiency virus type 1 full-length and short transcripts similarly. Journal of Virology, 70 (8). pp. 5025-34. ISSN 0022-538X

Pendergrast, P. S., Wang, C., Hernandez, N., Huang, S. (March 2002) FBI-1 can stimulate HIV-1 Tat activity and is targeted to a novel subnuclear domain that includes the Tat-P-TEFb-containing nuclear speckles. Molecular Biology of the Cell, 13 (3). pp. 915-929. ISSN 1059-1524

Pessler, F., Hernandez, N. (August 2003) Flexible DNA binding of the BTB/POZ-domain protein FBI-1. Journal of Biological Chemistry, 278 (31). pp. 29327-29335. ISSN 0021-9258

Pessler, F., Pendergrast, P. S., Hernandez, N. (July 1997) Purification and characterization of FBI-1, a cellular factor that binds to the human immunodeficiency virus type 1 inducer of short transcripts. Molecular and Cellular Biology, 17 (7). pp. 3786-98. ISSN 0270-7306 (Print)

Rabinowicz, P. D., Braun, E. L., Wolfe, A. D., Bowen, B., Grotewold, E. (September 1999) Maize R2R3 Myb genes: Sequence analysis reveals amplification in the higher plants. Genetics, 153 (1). pp. 427-44. ISSN 0016-6731 (Print)

Rada-Iglesias, A., Ameur, A., Kapranov, P., Enroth, S., Komorowski, J., Gingeras, T. R., Wadelius, C. (March 2008) Whole-genome maps of USF1 and USF2 binding and histone H3 acetylation reveal new aspects of promoter structure and candidate genes for common human disorders. Genome Research, 18 (3). pp. 380-92. ISSN 10889051 (ISSN)

Rauscher, F. J., Cohen, D. R., Curran, T., Bos, T. J., Vogt, P. K., Bohmann, D., Tjian, R., Franza, B. R. (May 1988) Fos-Associated Protein-P39 Is the Product of the Jun Proto-Oncogene. Science, 240 (4855). pp. 1010-1016. ISSN 0036-8075

Ribeiro, M. J., Serfozo, Z., Papp, A., Kemenes, I., O'Shea, M., Yin, J. C. P., Benjamin, P. R., Kemenes, G. (September 2003) Cyclic AMP response element-binding (CREB)-like proteins in a molluscan brain: cellular localization and learning-induced phosphorylation. European Journal of Neuroscience, 18 (5). pp. 1223-1234. ISSN 0953-816X

Rikitake, Y., Moran, E. (June 1992) DNA-binding properties of the E1A-associated 300-kilodalton protein. Mol Cell Biol, 12 (6). pp. 2826-36. ISSN 0270-7306 (Print)0270-7306 (Linking)

Sadowski, C. L., Henry, R. W., Kobayashi, R., Hernandez, N. (April 1996) The SNAP45 subunit of the small nuclear RNA (snRNA) activating protein complex is required for RNA polymerase II and III snRNA gene transcription and interacts with the TATA box binding protein. Proceedings of the National Academy of Sciences, 93 (9). pp. 4289-93. ISSN 0027-8424 (Print)

Sadowski, C. L., Henry, R. W., Lobo, S. M., Hernandez, N. (August 1993) Targeting TBP to a non-TATA box cis-regulatory element: a TBP-containing complex activates transcription from snRNA promoters through the PSE. Genes Dev, 7 (8). pp. 1535-48. ISSN 0890-9369 (Print)

Sadowski, H. B., Shuai, K., Darnell, J. E., Gilman, M. Z. (September 1993) A common nuclear signal transduction pathway activated by growth factor and cytokine receptors. Science, 261 (5129). pp. 1739-44. ISSN 0036-8075 (Print)

Sadowski, Henry B., Gilman, Michael Z. (March 1993) Cell-free activation of a DNA-binding protein by epidermal growth factor. Nature, 362 (6415). pp. 79-83.

Sanders, C. M., Stenlund, A. (December 1998) Recruitment and loading of the E1 initiator protein: an ATP-dependent process catalysed by a transcription factor. Embo J, 17 (23). pp. 7044-55. ISSN 0261-4189 (Print)

Schuck, S., Ruse, C., Stenlund, A. (May 2013) CK2 phosphorylation inactivates DNA binding by the papillomavirus E1 and E2 proteins. Journal of Virology, 87 (13). pp. 7668-7679. ISSN 0022-538X

Schuck, S., Stenlund, A. (July 2005) Role of papillomavirus E1 initiator dimerization in DNA replication. J Virol, 79 (13). pp. 8661-4. ISSN 0022-538X (Print)

Schuck, S., Stenlund, A. (August 2006) Surface mutagenesis of the bovine papillomavirus E1 DNA binding domain reveals residues required for multiple functions related to DNA replication. J Virol, 80 (15). pp. 7491-9. ISSN 0022-538X (Print)

Sedman, J., Stenlund, A. (December 1995) Co-operative interaction between the initiator E1 and the transcriptional activator E2 is required for replicator specific DNA replication of bovine papillomavirus in vivo and in vitro. Embo J, 14 (24). pp. 6218-28. ISSN 0261-4189 (Print)

Sedman, J., Stenlund, A. (September 1996) The initiator protein E1 binds to the bovine papillomavirus origin of replication as a trimeric ring-like structure. Embo J, 15 (18). pp. 5085-92. ISSN 0261-4189 (Print)

Sedman, T., Sedman, J., Stenlund, A. (April 1997) Binding of the E1 and E2 proteins to the origin of replication of bovine papillomavirus. J Virol, 71 (4). pp. 2887-96. ISSN 0022-538X (Print)

Selvakumar, M., Helfman, D. M. (March 1999) Exonic splicing enhancers contribute to the use of both 3' and 5' splice site usage of rat beta-tropomyosin pre-mRNA. Rna, 5 (3). pp. 378-94. ISSN 1355-8382 (Print)

Sharp, P. A., Gallimore, P. H., Flint, S. J. (1974) Mapping of Adenovirus 2 Rna Sequences in Lytically Infected-Cells and Transformed-Cell Lines. Cold Spring Harbor Symposia on Quantitative Biology, 39. pp. 457-474.

Smart, J. E., Stillman, B. W. (1982) Adenovirus terminal protein precursor. Partial amino acid sequence and the site of covalent linkage to virus DNA. Journal of Biological Chemistry, 257 (22). pp. 13499-13506. ISSN 00219258 (ISSN)

Stadler, K., Liu, N., Trotman, L. C., Hiltpold, A., Caderas, G., Klauser, S., Hehlgans, T., Gutte, B. (1995) Design, synthesis, and characterization of HIV-1 enhancer-binding polypeptides derived from bacteriophage 434 repressor. International Journal of Peptide and Protein Research, 46 (3-4). pp. 333-340. ISSN 03678377 (ISSN)

Stein, R. W., Corrigan, M., Yaciuk, P., Whelan, J., Moran, E. (September 1990) Analysis of E1A-mediated growth regulation functions: binding of the 300-kilodalton cellular product correlates with E1A enhancer repression function and DNA synthesis-inducing activity. J Virol, 64 (9). pp. 4421-7. ISSN 0022-538X (Print)0022-538X (Linking)

Stenlund, A. (February 2003) E1 initiator DNA binding specificity is unmasked by selective inhibition of non-specific DNA binding. Embo Journal, 22 (4). pp. 954-963. ISSN 0261-4189

Strick, T. R. (2005) Course 6 Single-molecule studies of DNA mechanics and DNA/Protein interactions. Les Houches, 82. pp. 161-209.

Sturm, R. A., Herr, W. (December 1988) The POU domain is a bipartite DNA-binding structure. Nature, 336 (6199). pp. 601-4. ISSN 0028-0836

Tanaka, M. (April 1996) Modulation of promoter occupancy by cooperative DNA binding and activation-domain function is a major determinant of transcriptional regulation by activators in vivo. Proceedings of the National Academy of Sciences of the United States of America, 93 (9). pp. 4311-5. ISSN 0027-8424

Tanaka, M., Herr, W. (February 1990) Differential transcriptional activation by Oct-1 and Oct-2: interdependent activation domains induce Oct-2 phosphorylation. Cell, 60 (3). pp. 375-86. ISSN 0092-8674 (Print)0092-8674 (Linking)

Tanaka, M., Herr, W. (September 1994) Reconstitution of transcriptional activation domains by reiteration of short peptide segments reveals the modular organization of a glutamine-rich activation domain. Mol Cell Biol, 14 (9). pp. 6056-67. ISSN 0270-7306 (Print)

Tansey, W. P., Herr, W. (November 1995) The ability to associate with activation domains in vitro is not required for the TATA box-binding protein to support activated transcription in vivo. Proc Natl Acad Sci U S A, 92 (23). pp. 10550-4. ISSN 0027-8424 (Print)

Thukral, SK, Blain, GC, Chang, KK, Fields, S (December 1994) Distinct residues of human p53 implicated in binding to DNA, simian virus 40 large T antigen, 53BP1, and 53BP2. Molecular and Cellular Biology, 14 (12). pp. 8315-8321. ISSN 0270-7306

Tjian, R. (January 1978) The binding site on SV40 DNA for a T antigen-related protein. Cell, 13 (1). pp. 165-79. ISSN 0092-8674 (Print)0092-8674 (Linking)

Ustav, E., Ustav, M., Szymanski, P., Stenlund, A. (February 1993) The bovine papillomavirus origin of replication requires a binding site for the E2 transcriptional activator. Proc Natl Acad Sci U S A, 90 (3). pp. 898-902. ISSN 0027-8424 (Print)

Ustav, M., Stenlund, A. (February 1991) Transient Replication of Bpv-1 Requires 2 Viral Polypeptides Encoded by the E1 and E2 Open Reading Frames. Embo Journal, 10 (2). pp. 449-457. ISSN 0261-4189

Ustav, M., Ustav, E., Szymanski, P., Stenlund, A. (December 1991) Identification of the origin of replication of bovine papillomavirus and characterization of the viral origin recognition factor E1. Embo J, 10 (13). pp. 4321-9.

Vielle-Calzada, J. P., Thomas, J., Spillane, C., Coluccio, A., Hoeppner, M. A., Grossniklaus, U. (November 1999) Maintenance of genomic imprinting at the Arabidopsis medea locus requires zygotic DDM1 activity. Genes and Development , 13 (22). pp. 2971-82. ISSN 0890-9369 (Print)

Vignais, M. L., Sadowski, H. B., Watling, D., Rogers, N. C., Gilman, M. (April 1996) Platelet-derived growth factor induces phosphorylation of multiple JAK family kinases and STAT proteins. Molecular and Cellular Biology, 16 (4). pp. 1759-69. ISSN 0270-7306

Walworth, N., Davey, S., Beach, D. (May 1993) Fission yeast chk1 protein kinase links the rad checkpoint pathway to cdc2. Nature, 363 (6427). pp. 368-71. ISSN 0028-0836 (Print)

Wang, H. G., Rikitake, Y., Carter, M. C., Yaciuk, P., Abraham, S. E., Zerler, B., Moran, E. (January 1993) Identification of specific adenovirus E1A N-terminal residues critical to the binding of cellular proteins and to the control of cell growth. J Virol, 67 (1). pp. 476-88. ISSN 0022-538X (Print)

Weirauch, M. T., Cote, A., Norel, R., Annala, M., Zhao, Y., Riley, T. R., Saez-Rodriguez, J., Cokelaer, T., Vedenko, A., Talukder, S., Bussemaker, H. J., Quaid, M. D., Bulyk, M. L., Stolovitzky, G., Hughes, T. R., Agius, P., Arvey, A., Bucher, P., Callan Jr, C. G., Chang, C. W., Chen, C. Y., Chen, Y. S., Chu, Y. W., Grau, J., Grosse, I., Jagannathan, V., Keilwagen, J., Kiebasa, S. M., Kinney, J. B., Klein, H., Kursa, M. B., Lähdesmäki, H., Laurila, K., Lei, C., Leslie, C., Linhart, C., Murugan, A., Myšičková, A., Noble, W. S., Nykter, M., Orenstein, Y., Posch, S., Ruan, J., Rudnicki, W. R., Schmid, C. D., Shamir, R., Sung, W. K., Vingron, M., Zhang, Z. (February 2013) Evaluation of methods for modeling transcription factor sequence specificity. Nature Biotechnology, 31 (2). pp. 126-134. ISSN 10870156 (ISSN)

White, M. A., Vale, T., Camonis, J. H., Schaefer, E., Wigler, M. H. (July 1996) A role for the Ral guanine nucleotide dissociation stimulator in mediating Ras-induced transformation. J Biol Chem, 271 (28). pp. 16439-42. ISSN 0021-9258 (Print)

Wilson, A. C., Cleary, M. A., Lai, J. S., LaMarco, K., Peterson, M. G., Herr, W. (June 1993) Combinatorial control of transcription: the herpes simplex virus VP16-induced complex. Cold Spring Harb Symp Quant Biol, 58. pp. 167-78. ISSN 0091-7451 (Print)

Wilson, A. C., LaMarco, K., Peterson, M. G., Herr, W. (July 1993) The VP16 accessory protein HCF is a family of polypeptides processed from a large precursor protein. Cell, 74 (1). pp. 115-25. ISSN 0092-8674 (Print)

Wilson, A. C., Parrish, J. E., Massa, H. F., Nelson, D. L., Trask, B. J., Herr, W. (January 1995) The gene encoding the VP16-accessory protein HCF (HCFC1) resides in human Xq28 and is highly expressed in fetal tissues and the adult kidney. Genomics, 25 (2). pp. 462-8. ISSN 0888-7543 (Print)

Wong, M. W., Henry, R. W., Ma, B., Kobayashi, R., Klages, N., Matthias, P., Strubin, M., Hernandez, N. (January 1998) The large subunit of basal transcription factor SNAPc is a Myb domain protein that interacts with Oct-1. Molecular and Cellular Biology, 18 (1). pp. 368-77. ISSN 0270-7306 (Print)

Xing, H., Mo, Y., Liao, W., Zhang, M. Q. (July 2012) Genome-Wide Localization of Protein-DNA Binding and Histone Modification by a Bayesian Change-Point Method with ChIP-seq Data. PLoS Comput Biol, 8 (7). e1002613. ISSN 1553-7358 (Electronic)1553-734X (Linking)

Xu, R. M., Koch, C., Liu, Y., Horton, J. R., Knapp, D., Nasmyth, K., Cheng, X. (March 1997) Crystal structure of the DNA-binding domain of Mbp1, a transcription factor important in cell-cycle control of DNA synthesis. Structure, 5 (3). pp. 349-58. ISSN 0969-2126 (Print)

Yang, A., Zhu, Z., Kettenbach, A., Kapranov, P., McKeon, F., Gingeras, T. R., Struhl, K. (2010) Genome-wide mapping indicates that p73 and p63 Co-occupy target sites and have similar DNA-binding profiles in vivo. PLoS ONE, 5 (7). ISSN 19326203 (ISSN)

Ying, H. Q., Chang, D. L. F., Zheng, H. W., McKeon, F., Xiao, Z. X. J. (July 2005) DNA-binding and transactivation activities are essential for TAp63 protein degradation. Molecular and Cellular Biology, 25 (14). pp. 6154-6164. ISSN 0270-7306

Zeng, P. Y., Vakoc, C. R., Chen, Z. C., Blobel, G. A., Berger, S. L. (2006) In vivo dual cross-linking for identification of indirect DNA-associated proteins by chromatin immunoprecipitation. Biotechniques, 41 (6). pp. 694-698. ISSN 07366205 (ISSN)

Zhao, X., Herr, W. (November 2003) Role of the inhibitory DNA-binding surface of human TATA-binding protein in recruitment of human TFIIB family members. Molecular and Cellular Biology, 23 (22). pp. 8152-60. ISSN 0270-7306 (Print)

Zhao, X. M., Herr, W. (March 2002) A regulated two-step mechanism of TBP binding to DNA: A solvent-exposed surface of TBP inhibits TATA box recognition. Cell, 108 (5). pp. 615-627. ISSN 0092-8674

Šušnjar, Urša, Škrabar, Neva, Brown, Anna-Leigh, Abbassi, Yasmine, Phatnani, Hemali, NYGC ALS Consortium, Cortese, Andrea, Cereda, Cristina, Bugiardini, Enrico, Cardani, Rosanna, Meola, Giovanni, Ripolone, Michela, Moggio, Maurizio, Romano, Maurizio, Secrier, Maria, Fratta, Pietro, Buratti, Emanuele (April 2022) Cell environment shapes TDP-43 function with implications in neuronal and muscle disease. Communications Biology, 5 (1). p. 314. ISSN 2399-3642

Book Section

Herr, W. (1991) Regulation of Eukaryotic Rna Polymerase Ii Transcription by Sequence-Specific DNA-Binding Proteins. In: The hormonal control of gene transcription. Molecular aspects of cellular regulation, 6 . Elsevier Science Publishers, Amsterdam, pp. 25-26. ISBN 0444802258