Hai Pan

Works (13)

Updated: July 10th, 2023 08:50

2023 article

Assembly path dependence of telomeric DNA compaction by TRF1, TIN2, and SA1

Liu, M., Pan, H., Kaur, P., Wang, L. J., Jin, M., Detwiler, A. C., … Riehn, R. (2023, April 20). Biophysical Journal, Vol. 122, pp. 1822–1832.

By: M. Liu  n, H. Pan n, P. Kaur n, L. Wang  n, M. Jin *, A. Detwiler *, P. Opresko *, Y. Tao *, H. Wang n , R. Riehn n 

MeSH headings : Humans; Telomeric Repeat Binding Protein 1 / chemistry; Telomeric Repeat Binding Protein 1 / genetics; Telomeric Repeat Binding Protein 1 / metabolism; Telomere / metabolism; Shelterin Complex; DNA
topics (OpenAlex): Advanced biosensing and bioanalysis techniques; RNA Interference and Gene Delivery; DNA and Nucleic Acid Chemistry
TL;DR: It is found that TRF1, TIN2, and SA1 work synergistically to cause a compaction of the DNA substrate, and that maximal compaction occurs if all three proteins are present. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: April 21, 2023

2022 article

Densely methylated DNA traps Methyl-CpG–binding domain protein 2 but permits free diffusion by Methyl-CpG–binding domain protein 3

Leighton, G. O., Irvin, E. M., Kaur, P., Liu, M., You, C., Bhattaram, D., … Williams, D. C. (2022, August 28). Journal of Biological Chemistry, Vol. 10.

By: G. Leighton *, E. Irvin n, P. Kaur n, M. Liu n, C. You *, D. Bhattaram *, J. Piehler *, R. Riehn n  ...

MeSH headings : CpG Islands; DNA Methylation; DNA-Binding Proteins / metabolism; Mi-2 Nucleosome Remodeling and Deacetylase Complex / genetics; Mi-2 Nucleosome Remodeling and Deacetylase Complex / metabolism; Nucleosomes; Protein Binding; Transcription Factors / metabolism; Humans; Single Molecule Imaging
topics (OpenAlex): Epigenetics and DNA Methylation; Genomics and Chromatin Dynamics; Genetics and Neurodevelopmental Disorders
TL;DR: These studies support a model in which MBD2-NuRD strongly localizes to and compacts methylated CpG islands while MBD3-NURD can freely mobilize nucleosomes independent of methylation status. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 29, 2022

2021 article

Structure, dynamics, and regulation of TRF1-TIN2-mediated trans- and cis-interactions on telomeric DNA

Pan, H., Kaur, P., Barnes, R., Detwiler, A. C., Sanford, S. L., Liu, M., … Wang, H. (2021, August 14). Journal of Biological Chemistry, Vol. 9.

By: H. Pan n, P. Kaur n, R. Barnes *, A. Detwiler *, S. Sanford *, M. Liu  n, P. Xu n, C. Mahn n ...

MeSH headings : Cell Adhesion Molecules / metabolism; Cell Adhesion Molecules / physiology; DNA / metabolism; DNA-Binding Proteins / metabolism; Humans; Microscopy, Atomic Force / methods; Models, Molecular; Multiprotein Complexes / metabolism; Protein Binding; Protein Isoforms / metabolism; Shelterin Complex / metabolism; Shelterin Complex / physiology; Telomere / metabolism; Telomere-Binding Proteins / metabolism; Telomere-Binding Proteins / physiology; Telomeric Repeat Binding Protein 1 / metabolism; Telomeric Repeat Binding Protein 1 / physiology; Telomeric Repeat Binding Protein 2 / metabolism; Telomeric Repeat Binding Protein 2 / physiology
topics (OpenAlex): Telomeres, Telomerase, and Senescence; DNA Repair Mechanisms; Genomics and Chromatin Dynamics
TL;DR: Analysis of DNA molecular structures promoted by TRF1-TIN2 interaction supports a molecular model in which protein assemblies at telomeres are heterogeneous with distinct subcomplexes and full shelterin complexes playing distinct roles in telomere protection and elongation. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: October 26, 2021

2021 article

TIN2 is an architectural protein that facilitates TRF2-mediated trans- and cis-interactions on telomeric DNA

Kaur, P., Barnes, R., Pan, H., Detwiler, A. C., Liu, M., Mahn, C., … Wang, H. (2021, December 8). Nucleic Acids Research, Vol. 49, pp. 13000–13018.

By: P. Kaur n, R. Barnes *, H. Pan n, A. Detwiler *, M. Liu n, C. Mahn n, J. Hall n , Z. Messenger n ...

MeSH headings : Animals; DNA / chemistry; DNA / genetics; DNA / metabolism; HeLa Cells; Humans; Mice, Inbred C57BL; Microscopy, Atomic Force; Nucleic Acid Conformation; Protein Binding; Shelterin Complex / genetics; Shelterin Complex / metabolism; Telomere / genetics; Telomere / metabolism; Telomere-Binding Proteins / genetics; Telomere-Binding Proteins / metabolism; Telomeric Repeat Binding Protein 2 / genetics; Telomeric Repeat Binding Protein 2 / metabolism
topics (OpenAlex): Telomeres, Telomerase, and Senescence; Advanced biosensing and bioanalysis techniques; DNA Repair Mechanisms
TL;DR: A molecular model in which TIN2 functions as an architectural protein to promote TRF2-mediated trans and cis higher-order nucleic acid structures at telomeres is proposed. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries, ORCID
Added: January 18, 2022

2021 article

Using Atomic Force Microscopy to Study the Real Time Dynamics of DNA Unwinding by Mitochondrial Twinkle Helicase

Kaur, P., Pan, H., Longley, M., Copeland, W., & Wang, H. (2021, January 1). BIO-PROTOCOL.

By: P. Kaur n, H. Pan n, M. Longley *, W. Copeland * & H. Wang n 

author keywords: Atomic Force Microscope; Twinkle helicase; Mitochondria; Liquid AFM imaging; Mitochondrial replication; Single molecule imaging
topics (OpenAlex): Mitochondrial Function and Pathology; DNA Repair Mechanisms; Genetic Neurodegenerative Diseases
TL;DR: The addition of mitochondrial single-stranded DNA binding protein (mtSSB) facilitates a 5-fold increase in the DNA unwinding rate for the Twinkle helicase, providing new platforms to examine DNA replication and to explore the mechanism driving DNA deletion and human diseases. (via Semantic Scholar)
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Source: Web Of Science
Added: September 20, 2021

2020 article

Cohesin SA1 and SA2 are RNA binding proteins that localize to RNA containing regions on DNA

Pan, H., Jin, M., Ghadiyaram, A., Kaur, P., Miller, H. E., Ta, H. M., … Wang, H. (2020, April 28). Nucleic Acids Research, Vol. 48, pp. 5639–5655.

By: H. Pan n, M. Jin *, A. Ghadiyaram n, P. Kaur n, H. Miller *, H. Ta *, M. Liu n, Y. Fan* ...

MeSH headings : Binding Sites; Cell Cycle Proteins / metabolism; Chromosomal Proteins, Non-Histone / metabolism; DNA / metabolism; R-Loop Structures; RNA / metabolism; RNA-Binding Proteins / metabolism
topics (OpenAlex): Genomics and Chromatin Dynamics; RNA Research and Splicing; RNA and protein synthesis mechanisms
TL;DR: It is discovered that both SA1 and SA2 bind to various RNA containing substrates, including ssRNA, dsRNA, RNA:DNA hybrids, and R-loops, and the majority of R-loop-localized SA1and SA2 are also sites where other subunits of the cohesin complex bind. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: October 5, 2020

2020 article

DNA looping by two 5-methylcytosine-binding proteins quantified using nanofluidic devices

Liu, M., Movahed, S., Dangi, S., Pan, H., Kaur, P., Bilinovich, S. M., … Riehn, R. (2020, March 16). Epigenetics & Chromatin, Vol. 13.

By: M. Liu n, S. Movahed n, S. Dangi n, H. Pan n, P. Kaur n, S. Bilinovich *, E. Faison *, G. Leighton * ...

author keywords: DNA methylation; MeCP2; MBD2; DNA compaction
MeSH headings : 5-Methylcytosine / chemistry; 5-Methylcytosine / metabolism; Binding Sites; DNA / chemistry; DNA / metabolism; DNA Methylation; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / metabolism; Epigenomics / methods; Humans; Methyl-CpG-Binding Protein 2 / chemistry; Methyl-CpG-Binding Protein 2 / metabolism; Microfluidics / instrumentation; Microfluidics / methods; Microscopy, Atomic Force / methods; Protein Binding
topics (OpenAlex): Advanced biosensing and bioanalysis techniques; RNA Interference and Gene Delivery; DNA and Nucleic Acid Chemistry
TL;DR: It is demonstrated that ATTO 565-labeled MBD2 is a good candidate as a staining agent for epigenetic mapping and determined that the mechanism for compaction by MeCP2 is the formation of bridges between distant DNA stretches and theformation of loops. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: April 20, 2020

2020 article

Single-molecule level structural dynamics of DNA unwinding by human mitochondrial Twinkle helicase

Kaur, P., Longley, M. J., Pan, H., Wang, W., Countryman, P., Wang, H., & Copeland, W. C. (2020, March 26). Journal of Biological Chemistry, Vol. 295, pp. 5564–5576.

By: P. Kaur n, M. Longley *, H. Pan n, W. Wang  n, P. Countryman n, H. Wang n , W. Copeland *

author keywords: atomic force microscopy (AFM); DNA binding protein; DNA helicase; DNA replication; mitochondrial disease; mitochondrial DNA (mtDNA); single-molecule biophysics; ssDNA-binding protein (SSB); structural dynamics; Twinkle helicase
MeSH headings : DNA / analysis; DNA / metabolism; DNA Helicases / analysis; DNA Helicases / metabolism; Humans; Microscopy, Atomic Force; Mitochondria / metabolism; Mitochondrial Proteins / analysis; Mitochondrial Proteins / metabolism; Nucleic Acid Conformation; Protein Binding; Protein Multimerization; Recombinant Proteins / analysis; Recombinant Proteins / metabolism
topics (OpenAlex): Mitochondrial Function and Pathology; RNA and protein synthesis mechanisms; DNA Repair Mechanisms
TL;DR: Atomic force microscopy imaging in air and liquids is employed to visualize ring assembly, DNA binding, and unwinding activity of individual Twinkle hexamers at the single-molecule level and finds that the addition of mitochondrial single-stranded DNA–binding protein both influences the ways Twinkle loads onto defined DNA substrates and stabilizes the unwound ssDNA product. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: May 18, 2020

2018 article

Optical Temperature Sensing With Infrared Excited Upconversion Nanoparticles

Green, K., Huang, K., Pan, H., Han, G., & Lim, S. F. (2018, September 24). Frontiers in Chemistry, Vol. 6.

By: K. Green n, K. Huang *, H. Pan n, G. Han * & S. Lim n 

author keywords: upconversion thermal sensing; pulsed excitation; 800 nm; 980 nm; local thermal heating; DNA denaturation
topics (OpenAlex): Spectroscopy Techniques in Biomedical and Chemical Research; Photoreceptor and optogenetics research; Luminescence Properties of Advanced Materials
TL;DR: These studies provide evidence for the feasibility of exploring protein-DNA interactions at the single molecule scale, using UCNPs as a reporter, and confirm the applicability of infrared imaging at excitation intensities compatible with single nanoparticle tracking. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: October 16, 2018

2018 article

Single-molecule DREEM imaging reveals DNA wrapping around human mitochondrial single-stranded DNA binding protein

Kaur, P., Longley, M. J., Pan, H., Wang, H., & Copeland, W. C. (2018, September 18). Nucleic Acids Research, Vol. 46, pp. 11287–11302.

By: P. Kaur n, M. Longley *, H. Pan n, H. Wang n  & W. Copeland *

MeSH headings : DNA, Mitochondrial / chemistry; DNA, Mitochondrial / metabolism; DNA, Single-Stranded / chemistry; DNA, Single-Stranded / metabolism; DNA-Binding Proteins / analysis; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / metabolism; Fluorescence Polarization; Humans; Microscopy, Atomic Force / methods; Mitochondrial Proteins / analysis; Mitochondrial Proteins / chemistry; Mitochondrial Proteins / metabolism; Protein Conformation; Protein Stability; Recombinant Proteins / genetics; Single Molecule Imaging / methods; Static Electricity
topics (OpenAlex): Mitochondrial Function and Pathology; DNA Repair Mechanisms; Metabolism and Genetic Disorders
TL;DR: Single-molecule imaging suggests mtSSB may not saturate or fully protect single-stranded replication intermediates during mtDNA synthesis, leaving the mitochondrial genome vulnerable to chemical mutagenesis, deletions driven by primer relocation or other actions consistent with clinically observed deletion biases. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: February 11, 2019

2017 article

Cohesin SA2 is a sequence-independent DNA-binding protein that recognizes DNA replication and repair intermediates

Countryman, P., Fan, Y., Gorthi, A., Pan, H., Strickland, E., Kaur, P., … Wang, H. (2017, November 24). Journal of Biological Chemistry, Vol. 293, pp. 1054–1069.

By: P. Countryman n, Y. Fan*, A. Gorthi *, H. Pan n, E. Strickland  n, P. Kaur n, X. Wang  n, J. Lin  n ...

MeSH headings : Cell Cycle Proteins / chemistry; Cell Cycle Proteins / metabolism; Chromosomal Proteins, Non-Histone / chemistry; Chromosomal Proteins, Non-Histone / metabolism; DNA Repair / genetics; DNA Repair / physiology; DNA Replication / physiology; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / metabolism; Fluorescence Polarization; Genomic Instability / genetics; Genomic Instability / physiology; Microscopy, Atomic Force; Microscopy, Fluorescence; Protein Binding / genetics; Protein Binding / physiology
topics (OpenAlex): Genomics and Chromatin Dynamics; DNA Repair Mechanisms; Diffusion and Search Dynamics
TL;DR: The results suggest that SA2 functions at intermediate DNA structures during DNA transactions in genome maintenance pathways, and has important implications for understanding the function of cohesin in these pathways. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2017 article

CpG and methylation-dependent DNA binding and dynamics of the methylcytosine binding domain 2 protein at the single-molecule level

Pan, H., Bilinovich, S. M., Kaur, P., Riehn, R., Wang, H., & Williams, D. C. (2017, June 13). Nucleic Acids Research, Vol. 45, pp. 9164–9177.

By: H. Pan n, S. Bilinovich *, P. Kaur n, R. Riehn n , H. Wang n  & D. Williams *

MeSH headings : 5-Methylcytosine / chemistry; 5-Methylcytosine / metabolism; Animals; Binding Sites; Chickens; Cloning, Molecular; CpG Islands; DNA / chemistry; DNA / metabolism; DNA Methylation; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / genetics; DNA-Binding Proteins / metabolism; Escherichia coli / genetics; Escherichia coli / metabolism; Fluorescence Polarization; Gene Expression; Humans; Magnetic Resonance Spectroscopy; Mi-2 Nucleosome Remodeling and Deacetylase Complex / metabolism; Mi-2 Nucleosome Remodeling and Deacetylase Complex / ultrastructure; Nucleic Acid Conformation; Nucleosomes / metabolism; Nucleosomes / ultrastructure; Protein Binding; Protein Isoforms / chemistry; Protein Isoforms / genetics; Protein Isoforms / metabolism; Recombinant Proteins / chemistry; Recombinant Proteins / genetics; Recombinant Proteins / metabolism; Single Molecule Imaging
topics (OpenAlex): Epigenetics and DNA Methylation; Genomics and Chromatin Dynamics; DNA and Nucleic Acid Chemistry
TL;DR: The results suggest that MBD2 targets NuRD to unmethylated or methylated CpG islands where its distinct dynamic binding modes help maintain open or closed chromatin, respectively. (via Semantic Scholar)
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14. Life Below Water (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2016 article

Functional interplay between SA1 and TRF1 in telomeric DNA binding and DNA–DNA pairing

Lin, J., Countryman, P., Chen, H., Pan, H., Fan, Y., Jiang, Y., … Wang, H. (2016, June 13). Nucleic Acids Research, Vol. 44, pp. 6363–6376.

By: J. Lin n, P. Countryman n, H. Chen *, H. Pan n, Y. Fan*, Y. Jiang *, P. Kaur n, W. Miao * ...

MeSH headings : AT-Hook Motifs / genetics; Chromatids / genetics; Chromatids / ultrastructure; Chromosome Segregation / genetics; DNA-Binding Proteins / genetics; Humans; Microscopy, Atomic Force; Mitosis / genetics; Nuclear Proteins / genetics; Nuclear Proteins / metabolism; Telomere / genetics; Telomere / ultrastructure; Telomere-Binding Proteins / genetics; Telomere-Binding Proteins / metabolism; Telomeric Repeat Binding Protein 1 / genetics; Telomeric Repeat Binding Protein 1 / metabolism
topics (OpenAlex): Genomics and Chromatin Dynamics; Diffusion and Search Dynamics; DNA Repair Mechanisms
TL;DR: The results suggest that at telomeres cohesion relies on the molecular interplay between TRF1 and SA1 to promote DNA–DNA pairing, while along chromosomal arms the core cohesin assembly might also depend on SA1 1D diffusion on DNA and sequence-specific DNA binding. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

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