| scholarly article | Q13442814 |
| review article | Q7318358 |
| P50 | author | Jason Gorman | Q42765006 |
| P2093 | author name string | Eric C Greene | |
| P2860 | cites work | How do site-specific DNA-binding proteins find their targets? | Q24563835 |
| RecBCD enzyme switches lead motor subunits in response to chi recognition | Q24684193 | ||
| Crystal structures of mismatch repair protein MutS and its complex with a substrate DNA | Q27627633 | ||
| The crystal structure of DNA mismatch repair protein MutS binding to a G x T mismatch | Q27627644 | ||
| Structure of the human MutSalpha DNA lesion recognition complex | Q27644980 | ||
| hMSH2-hMSH6 forms a hydrolysis-independent sliding clamp on mismatched DNA | Q28138775 | ||
| The lac repressor-operator interaction. 3. Kinetic studies | Q28247930 | ||
| DNA mismatch repair | Q28256190 | ||
| hMSH4-hMSH5 recognizes Holliday Junctions and forms a meiosis-specific sliding clamp that embraces homologous chromosomes | Q28276445 | ||
| Long-distance lateral diffusion of human Rad51 on double-stranded DNA. | Q30476640 | ||
| A base-excision DNA-repair protein finds intrahelical lesion bases by fast sliding in contact with DNA. | Q30477242 | ||
| Single-molecule analysis of 1D diffusion and transcription elongation of T7 RNA polymerase along individual stretched DNA molecules | Q30479757 | ||
| Dynamic basis for one-dimensional DNA scanning by the mismatch repair complex Msh2-Msh6. | Q30496957 | ||
| Facilitated target location on DNA by individual Escherichia coli RNA polymerase molecules observed with the scanning force microscope operating in liquid. | Q30708246 | ||
| RNA polymerase can track a DNA groove during promoter search | Q30834236 | ||
| Single-molecule imaging of RNA polymerase-DNA interactions in real time | Q31917016 | ||
| Measurement of the contributions of 1D and 3D pathways to the translocation of a protein along DNA. | Q34091428 | ||
| Physical constraints and functional characteristics of transcription factor-DNA interaction. | Q34155055 | ||
| Protein dynamics: implications for nuclear architecture and gene expression. | Q34166236 | ||
| Detecting transient intermediates in macromolecular binding by paramagnetic NMR. | Q34518214 | ||
| Probing transcription factor dynamics at the single-molecule level in a living cell | Q34631575 | ||
| How to get from A to B: strategies for analysing protein motion on DNA. | Q34745414 | ||
| NMR structural and kinetic characterization of a homeodomain diffusing and hopping on nonspecific DNA. | Q35108070 | ||
| Global nature of dynamic protein-chromatin interactions in vivo: three-dimensional genome scanning and dynamic interaction networks of chromatin proteins | Q35126514 | ||
| Protein roadblocks and helix discontinuities are barriers to the initiation of mismatch repair | Q35879662 | ||
| Nucleosome hopping and sliding kinetics determined from dynamics of single chromatin fibers in Xenopus egg extracts | Q35962959 | ||
| Facilitated diffusion in chromatin lattices: mechanistic diversity and regulatory potential. | Q36223542 | ||
| Involvement of outside DNA sequences in the major kinetic path by which EcoRI endonuclease locates and leaves its recognition sequence | Q36301554 | ||
| The multifaceted mismatch-repair system | Q36448284 | ||
| The road much traveled: trafficking in the cell nucleus | Q36452215 | ||
| Evidence for a common mode of transcription factor interaction with chromatin as revealed by improved quantitative fluorescence recovery after photobleaching. | Q36510561 | ||
| Tumor suppressor p53 slides on DNA with low friction and high stability | Q36717623 | ||
| Sliding and jumping of single EcoRV restriction enzymes on non-cognate DNA. | Q36777856 | ||
| Chromatin remodeling: insights and intrigue from single-molecule studies | Q36994145 | ||
| Analysis of the interaction between the Saccharomyces cerevisiae MSH2-MSH6 and MLH1-PMS1 complexes with DNA using a reversible DNA end-blocking system. | Q38328409 | ||
| Kinetic characterization of linear diffusion of the restriction endonuclease EcoRV on DNA. | Q38339073 | ||
| Pausing of the restriction endonuclease EcoRI during linear diffusion on DNA. | Q38569689 | ||
| Kinetics of protein-DNA interaction: facilitated target location in sequence-dependent potential | Q40308402 | ||
| One- and three-dimensional pathways for proteins to reach specific DNA sites | Q40388353 | ||
| The one-dimensional diffusion coefficient of proteins absorbed on DNA. Hydrodynamic considerations | Q41076724 | ||
| Cohesin relocation from sites of chromosomal loading to places of convergent transcription | Q41809530 | ||
| DNA bending by Cro protein in specific and nonspecific complexes: implications for protein site recognition and specificity | Q43660607 | ||
| Real-time observation of DNA translocation by the type I restriction modification enzyme EcoR124I. | Q43959489 | ||
| The coordinated functions of the E. coli MutS and MutL proteins in mismatch repair | Q44530427 | ||
| p53 linear diffusion along DNA requires its C terminus | Q45138454 | ||
| Sequence-directed DNA translocation by purified FtsK. | Q45244836 | ||
| Inhibition of Msh6 ATPase activity by mispaired DNA induces a Msh2(ATP)-Msh6(ATP) state capable of hydrolysis-independent movement along DNA. | Q46462569 | ||
| Association kinetics with coupled three- and one-dimensional diffusion. Chain-length dependence of the association rate of specific DNA sites. | Q52722974 | ||
| Diffusion-driven mechanisms of protein translocation on nucleic acids. 1. Models and theory. | Q52732418 | ||
| Diffusion-driven mechanisms of protein translocation on nucleic acids. 3. The Escherichia coli lac repressor--operator interaction: kinetic measurements and conclusions. | Q52732434 | ||
| Structure and flexibility adaptation in nonspecific and specific protein-DNA complexes. | Q54502915 | ||
| Visualization of single molecules of RNA polymerase sliding along DNA. | Q54647002 | ||
| NC2 mobilizes TBP on core promoter TATA boxes. | Q55045569 | ||
| Diffusion Constant of a Nonspecifically Bound Protein Undergoing Curvilinear Motion along DNA† | Q60158913 | ||
| Linear diffusion on DNA despite high-affinity binding by a DNA polymerase processivity factor | Q77086710 | ||
| Single molecule measurements of repressor protein 1D diffusion on DNA | Q80108659 | ||
| A sliding restriction enzyme pauses | Q80166160 | ||
| P433 | issue | 8 | |
| P921 | main subject | visualization | Q451553 |
| P304 | page(s) | 768-774 | |
| P577 | publication date | 2008-08-05 | |
| P1433 | published in | Nature Structural & Molecular Biology | Q1071739 |
| P1476 | title | Visualizing one-dimensional diffusion of proteins along DNA. | |
| P478 | volume | 15 |
| Q47584481 | A Simple, Robust, and High Throughput Single Molecule Flow Stretching Assay Implementation for Studying Transport of Molecules Along DNA. |
| Q37226213 | A mathematical model for scanning and catalysis on single-stranded DNA, illustrated with activation-induced deoxycytidine deaminase |
| Q30537745 | AID and Apobec3G haphazard deamination and mutational diversity |
| Q34111752 | Absence of a simple code: how transcription factors read the genome |
| Q30842818 | Accuracy of the detection of binding events using 3D single particle tracking |
| Q30502490 | Analysis of a single-stranded DNA-scanning process in which activation-induced deoxycytidine deaminase (AID) deaminates C to U haphazardly and inefficiently to ensure mutational diversity |
| Q46547366 | Analysis of alcohol-induced DNA damage in Escherichia coli by visualizing single genomic DNA molecules |
| Q37427199 | Assembly of multiprotein complexes that control genome function |
| Q36069066 | Asymmetrical roles of zinc fingers in dynamic DNA-scanning process by the inducible transcription factor Egr-1. |
| Q36079071 | Balancing between affinity and speed in target DNA search by zinc-finger proteins via modulation of dynamic conformational ensemble |
| Q55321915 | Base-flipping dynamics from an intrahelical to an extrahelical state exerted by thymine DNA glycosylase during DNA repair process. |
| Q21129443 | Brain glycogen-new perspectives on its metabolic function and regulation at the subcellular level |
| Q36573012 | Bringing single-molecule spectroscopy to macromolecular protein complexes |
| Q56268816 | Coarse-grained models for studying protein diffusion along DNA |
| Q44877350 | Cohesin SA2 is a sequence independent DNA binding protein that recognizes DNA replication and repair intermediates. |
| Q30576104 | Collaborative dynamic DNA scanning by nucleotide excision repair proteins investigated by single- molecule imaging of quantum-dot-labeled proteins |
| Q33849833 | Combining optical trapping, fluorescence microscopy and micro-fluidics for single molecule studies of DNA-protein interactions |
| Q33631869 | Combining optical tweezers, single-molecule fluorescence microscopy, and microfluidics for studies of DNA-protein interactions. |
| Q34723624 | Concentration-dependent exchange accelerates turnover of proteins bound to double-stranded DNA |
| Q41629782 | CpG and methylation-dependent DNA binding and dynamics of the methylcytosine binding domain 2 protein at the single-molecule level. |
| Q36700159 | DNA concentration-dependent dissociation of EcoRI: direct transfer or reaction during hopping. |
| Q38023114 | DNA damage by reactive species: Mechanisms, mutation and repair. |
| Q36619919 | DNA target sequence identification mechanism for dimer-active protein complexes. |
| Q37839479 | DNA translocation by type III restriction enzymes: a comparison of current models of their operation derived from ensemble and single-molecule measurements |
| Q53558152 | DNA-binding protein searches for its target: Non-monotonic dependence of the search time on the density of roadblocks bound on the DNA chain. |
| Q36110835 | Dancing on DNA: kinetic aspects of search processes on DNA |
| Q34281439 | Dark-field illumination on zero-mode waveguide/microfluidic hybrid chip reveals T4 replisomal protein interactions |
| Q35212587 | Diffusion of human replication protein A along single-stranded DNA. |
| Q33618211 | Diffusion of the restriction nuclease EcoRI along DNA. |
| Q30540348 | Direct imaging of single UvrD helicase dynamics on long single-stranded DNA |
| Q37040440 | Direct observation of the ion-pair dynamics at a protein-DNA interface by NMR spectroscopy |
| Q27303421 | Directly interrogating single quantum dot labelled UvrA2 molecules on DNA tightropes using an optically trapped nanoprobe |
| Q36804148 | Distinct Interaction Modes of the Kinesin-13 Motor Domain with the Microtubule |
| Q33908429 | Dynamic strategies for target-site search by DNA-binding proteins |
| Q37382348 | Dynamics of lesion processing by bacterial nucleotide excision repair proteins |
| Q37690391 | Encounter complexes and dimensionality reduction in protein-protein association |
| Q93012125 | Eukaryotic transcription factors can track and control their target genes using DNA antennas |
| Q50954457 | Exact distributions of cover times for N independent random walkers in one dimension. |
| Q41510951 | Features of genomic organization in a nucleotide-resolution molecular model of the Escherichia coli chromosome |
| Q51026290 | First Order Transition for the Optimal Search Time of Lévy Flights with Resetting. |
| Q91625989 | Fluid heterogeneity detection based on the asymptotic distribution of the time-averaged mean squared displacement in single particle tracking experiments |
| Q48176137 | Fluidic supramolecular nano- and microfibres as molecular rails for regulated movement of nanosubstances |
| Q38182184 | Foundations for modeling the dynamics of gene regulatory networks: a multilevel-perspective review |
| Q33426383 | From nonspecific DNA-protein encounter complexes to the prediction of DNA-protein interactions |
| Q30837444 | Functional interplay between SA1 and TRF1 in telomeric DNA binding and DNA-DNA pairing |
| Q37772648 | Functional nuclear architecture studied by microscopy: present and future |
| Q37373601 | Functionalization of a nanopore: the nuclear pore complex paradigm |
| Q37659962 | Hierarchical structures made of proteins. The complex architecture of spider webs and their constituent silk proteins |
| Q30400328 | High-Throughput Universal DNA Curtain Arrays for Single-Molecule Fluorescence Imaging |
| Q33819477 | Hopping enables a DNA repair glycosylase to search both strands and bypass a bound protein. |
| Q36389371 | How DNA-repair proteins find their targets |
| Q37262523 | How do proteins locate specific targets in DNA? |
| Q51401173 | How nonspecifically DNA-binding proteins search for the target in crowded environments. |
| Q39935230 | Hypermutation by intersegmental transfer of APOBEC3G cytidine deaminase |
| Q39881722 | In vivo fluorescence correlation spectroscopy analyses of FMBP-1, a silkworm transcription factor |
| Q89532112 | Inferring quantity and qualities of superimposed reaction rates from single molecule survival time distributions |
| Q36272461 | Influence of quasi-specific sites on kinetics of target DNA search by a sequence-specific DNA-binding protein |
| Q30585004 | Insights into the glycosylase search for damage from single-molecule fluorescence microscopy |
| Q35872189 | Interenzyme substrate diffusion for an enzyme cascade organized on spatially addressable DNA nanostructures |
| Q41542011 | Kinesin-8 is a low-force motor protein with a weakly bound slip state |
| Q37548523 | Large-scale mapping of gene regulatory logic reveals context-dependent repression by transcriptional activators. |
| Q41882363 | Mechanistic stochastic model of histone modification pattern formation |
| Q37146790 | MetJ repressor interactions with DNA probed by in-cell NMR. |
| Q34044395 | Microscopic mechanism of DNA damage searching by hOGG1 |
| Q54683046 | Model of gene transcription including the return of a RNA polymerase to the beginning of a transcriptional cycle. |
| Q37255614 | Modeling spatial correlation of DNA deformation: DNA allostery in protein binding. |
| Q53363872 | Molecular crowding effect on dynamics of DNA-binding proteins search for their targets. |
| Q37621669 | Motor and tail homology 1 (Th1) domains antagonistically control myosin-1 dynamics |
| Q37680419 | Multiple-binding-site mechanism explains concentration-dependent unbinding rates of DNA-binding proteins |
| Q27324455 | Nano-mechanical measurements of protein-DNA interactions with a silicon nitride pulley |
| Q33588868 | Nanofabricated racks of aligned and anchored DNA substrates for single-molecule imaging |
| Q48537863 | Non-Markovian effects in the first-passage dynamics of obstructed tracer particle diffusion in one-dimensional systems |
| Q51117465 | Normal-to-anomalous diffusion transition in disordered correlated potentials: from the central limit theorem to stable laws. |
| Q37442208 | Nuance in the double-helix and its role in protein-DNA recognition. |
| Q37851243 | Nuclear magnetic resonance analysis of protein-DNA interactions |
| Q50530506 | Nuclear proteins: finding and binding target sites in chromatin. |
| Q40495004 | Obstacles may facilitate and direct DNA search by proteins |
| Q27671636 | Oligomeric Structure of the Chemokine CCL5/RANTES from NMR, MS, and SAXS Data |
| Q28583979 | Online games: a novel approach to explore how partial information influences human random searches |
| Q36656166 | Optical Methods to Study Protein-DNA Interactions in Vitro and in Living Cells at the Single-Molecule Level. |
| Q41555444 | Optimal Length of Conformational Transition Region in Protein Search for Targets on DNA. |
| Q51019230 | Optimal estimation of diffusion coefficients from single-particle trajectories. |
| Q42099927 | ParticleStats: open source software for the analysis of particle motility and cytoskeletal polarity |
| Q36356192 | Peripheral membrane associations of matrix metalloproteinases |
| Q37813036 | Physics of protein–DNA interactions: mechanisms of facilitated target search |
| Q33791313 | Positive and negative impacts of nonspecific sites during target location by a sequence-specific DNA-binding protein: origin of the optimal search at physiological ionic strength. |
| Q41509894 | Potential role of DNA methylation as a facilitator of target search processes for transcription factors through interplay with methyl-CpG-binding proteins. |
| Q35030496 | Precision platform for convex lens-induced confinement microscopy |
| Q30658188 | Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher |
| Q46180848 | Probing transcription factor diffusion dynamics in the living mammalian embryo with photoactivatable fluorescence correlation spectroscopy |
| Q37285283 | Proliferating cell nuclear antigen uses two distinct modes to move along DNA. |
| Q50671735 | Protein-DNA interactions in high speed AFM: single molecule diffusion analysis of human RAD54. |
| Q51821398 | Quantifying hopping and jumping in facilitated diffusion of DNA-binding proteins. |
| Q42348483 | Rapid movement and transcriptional re-localization of human cohesin on DNA |
| Q36434978 | RecA filament sliding on DNA facilitates homology search |
| Q92910152 | Redox Chemistry in the Genome: Emergence of the [4Fe4S] Cofactor in Repair and Replication |
| Q35162915 | SSB functions as a sliding platform that migrates on DNA via reptation. |
| Q42430405 | Searching for the Nik operon: how a ligand-responsive transcription factor hunts for its DNA binding site |
| Q30525788 | Sequence-dependent sliding kinetics of p53 |
| Q37635330 | Single molecule approaches to transcription factor kinetics in living cells |
| Q41827536 | Single-image diffusion coefficient measurements of proteins in free solution |
| Q46237506 | Single-molecule DNA unzipping reveals asymmetric modulation of a transcription factor by its binding site sequence and context |
| Q30577983 | Single-molecule analysis reveals human UV-damaged DNA-binding protein (UV-DDB) dimerizes on DNA via multiple kinetic intermediates |
| Q30491964 | Single-molecule dynamics of the DNA-EcoRII protein complexes revealed with high-speed atomic force microscopy. |
| Q35921839 | Single-molecule imaging of DNA curtains reveals mechanisms of KOPS sequence targeting by the DNA translocase FtsK. |
| Q30528236 | Single-molecule imaging reveals target-search mechanisms during DNA mismatch repair |
| Q35591030 | Single-molecule studies of transcription: from one RNA polymerase at a time to the gene expression profile of a cell |
| Q38135534 | Single-molecule views on homologous recombination. |
| Q92358665 | Single-molecule visualization reveals the damage search mechanism for the human NER protein XPC-RAD23B |
| Q57911151 | Sliding and target location of DNA-binding proteins:an NMR view of the lac repressor system |
| Q41480777 | Spatially encoded fast single-molecule fluorescence spectroscopy with full field-of-view |
| Q45909491 | Structures during binding of cAMP receptor to promoter DNA: promoter search slowed by non-specific sites. |
| Q61451641 | Synergy between RecBCD subunits is essential for efficient DNA unwinding |
| Q30572827 | TRF1 and TRF2 use different mechanisms to find telomeric DNA but share a novel mechanism to search for protein partners at telomeres |
| Q43231877 | Target search dynamics during post-replicative mismatch repair |
| Q33767656 | Tethered-hopping model for protein-DNA binding and unbinding based on Sox2-Oct1-Hoxb1 ternary complex simulations |
| Q37330525 | Tetrameric structure of the restriction DNA glycosylase R.PabI in complex with nonspecific double-stranded DNA. |
| Q33797879 | The Neuronal Splicing Factor Nova Co-Localizes with Target RNAs in the Dendrite |
| Q51592959 | The diffusion constant of a labeled protein sliding along DNA. |
| Q37162787 | The diffusive interaction of microtubule binding proteins |
| Q37700554 | The influence of dynein processivity control, MAPs, and microtubule ends on directional movement of a localising mRNA. |
| Q30663428 | The limits of chemosensation vary across dimensions |
| Q41902804 | The promoter-search mechanism of Escherichia coli RNA polymerase is dominated by three-dimensional diffusion |
| Q29616407 | The role of dynamic conformational ensembles in biomolecular recognition |
| Q35956081 | The rotation-coupled sliding of EcoRV |
| Q46626119 | Theory of bimolecular reactions in a solution with linear traps: Application to the problem of target search on DNA. |
| Q33619052 | Toward single-molecule optical mapping of the epigenome |
| Q42548548 | Tracking of single quantum dot labeled EcoRV sliding along DNA manipulated by double optical tweezers. |
| Q37603622 | Transcription dynamics |
| Q57831564 | Tuning the performance of an artificial protein motor |
| Q33895798 | Ultrafast redistribution of E. coli SSB along long single-stranded DNA via intersegment transfer |
| Q35102946 | Unraveling secrets of telomeres: one molecule at a time. |
| Q38494449 | Visualization of large elongated DNA molecules |
| Q34193203 | Visualizing one-dimensional diffusion of eukaryotic DNA repair factors along a chromatin lattice |
| Q30585002 | Visualizing protein movement on DNA at the single-molecule level using DNA curtains |
| Q28080003 | When fast is better: protein folding fundamentals and mechanisms from ultrafast approaches |
| Q37815869 | When needles look like hay: how to find tissue-specific enhancers in model organism genomes |
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