List of works - Dinshaw J. Patel

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer

scientific article

A Poised Chromatin Platform for TGF-β Access to Master Regulators

scientific article

A dual flip-out mechanism for 5mC recognition by the Arabidopsis SUVH5 SRA domain and its impact on DNA methylation and H3K9 dimethylation in vivo

scientific article

A phage-encoded anti-CRISPR enables complete evasion of type VI-A CRISPR-Cas immunity

scientific article published on 28 May 2020

A selective jumonji H3K27 demethylase inhibitor modulates the proinflammatory macrophage response

scientific article

A stable transcription factor complex nucleated by oligomeric AML1–ETO controls leukaemogenesis

scientific article

ATRX ADD domain links an atypical histone methylation recognition mechanism to human mental-retardation syndrome

scientific article

An Alpha Motif at Tas3 C Terminus Mediates RITS cis Spreading and Promotes Heterochromatic Gene Silencing

scientific article

An H3K36 methylation-engaging Tudor motif of polycomb-like proteins mediates PRC2 complex targeting

scientific article

Apramycin recognition by the human ribosomal decoding site

scientific article

Arabidopsis Accelerated Cell Death 11, ACD11, Is a Ceramide-1-Phosphate Transfer Protein and Intermediary Regulator of Phytoceramide Levels

scientific article

Binding of guide piRNA triggers methylation of the unstructured N-terminal region of Aub leading to assembly of the piRNA amplification complex

scientific article published on 01 July 2021

Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch

scientific article

Cofactor-assisted dicing: insights from structural snapshots

scientific article published in 2022

Combination of antiviral drugs inhibits SARS-CoV-2 polymerase and exonuclease and demonstrates COVID-19 therapeutic potential in viral cell culture

scientific article published on 22 February 2022

Control of a neuronal morphology program by an RNA-binding zinc finger protein, Unkempt

scientific article

Cryo-EM structure of DNA-bound Smc5/6 reveals DNA clamping enabled by multi-subunit conformational changes

scientific article published on 01 June 2022

Cucumber mosaic virus-encoded 2b suppressor inhibits Arabidopsis Argonaute1 cleavage activity to counter plant defense

scientific article (publication date: December 2006)

Cyclic [G(2′,5′)pA(3′,5′)p] Is the Metazoan Second Messenger Produced by DNA-Activated Cyclic GMP-AMP Synthase

scientific article

DAXX envelops a histone H3.3-H4 dimer for H3.3-specific recognition

scientific article

DNA methylation pathways and their crosstalk with histone methylation

scientific article (publication date: September 2015)

DNA-driven condensation assembles the meiotic DNA break machinery

scientific article published on 17 March 2021

DNMT1 reads heterochromatic H4K20me3 to reinforce LINE-1 DNA methylation

scientific article published on 03 May 2021

Development of human cGAS-specific small-molecule inhibitors for repression of dsDNA-triggered interferon expression

scientific article published on 21 May 2019

Dicer recognizes the 5' end of RNA for efficient and accurate processing

scientific article

Differential nucleotide excision repair susceptibility of bulky DNA adducts in different sequence contexts: hierarchies of recognition signals

scientific article

Direct readout of heterochromatic H3K9me3 regulates DNMT1-mediated maintenance DNA methylation

scientific article published on 16 July 2020

Dual Binding of Chromomethylase Domains to H3K9me2-Containing Nucleosomes Directs DNA Methylation in Plants

scientific article

Encapsulating streptomycin within a small 40-mer RNA

scientific article (publication date: February 2003)

Enhanced Selectivity for Sulfatide by Engineered Human Glycolipid Transfer Protein

scientific article

Eukaryote-specific insertion elements control human ARGONAUTE slicer activity

scientific article

Fluoride ion encapsulation by Mg2+ ions and phosphates in a fluoride riboswitch ⬇️

scientific article published on May 13, 2012

Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger

scientific article

Impact of Conformational Heterogeneity of OxoG Lesions and Their Pairing Partners on Bypass Fidelity by Y Family Polymerases

scientific article

Implications for Damage Recognition during Dpo4-Mediated Mutagenic Bypass of m1G and m3C Lesions ⬇️

scientific article published on June 8, 2011

Long-range pseudoknot interactions dictate the regulatory response in the tetrahydrofolate riboswitch ⬇️

scientific article published on August 22, 2011

Malignant brain tumor repeats: a three-leaved propeller architecture with ligand/peptide binding pockets

scientific article

Mechanism of error-free and semitargeted mutagenic bypass of an aromatic amine lesion by Y-family polymerase Dpo4

scientific article

Metabolite recognition principles and molecular mechanisms underlying riboswitch function

scientific article (publication date: 2012)

Molecular Mechanism of Action of Plant DRM De Novo DNA Methyltransferases

scientific article

Molecular basis for site-specific read-out of histone H3K4me3 by the BPTF PHD finger of NURF

scientific article (publication date: 6 July 2006)

Molecular basis of nucleosomal H3K36 methylation by NSD methyltransferases

scientific article published on 23 December 2020

Molecular recognition and function of riboswitches

scientific article

Multimeric assembly and biochemical characterization of the Trax–translin endonuclease complex

scientific article

Non-vesicular trafficking by a ceramide-1-phosphate transfer protein regulates eicosanoids

scientific article

Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes

scientific article

PHD Finger Recognition of Unmodified Histone H3R2 Links UHRF1 to Regulation of Euchromatic Gene Expression ⬇️

scientific article published on July 22, 2011

Point mutational analysis of the liganding site in human glycolipid transfer protein. Functionality of the complex

scientific article

Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1

scientific article

Profile of Dinshaw J. Patel

scientific article (publication date: 25 August 2015)

Protein-RNA and Protein-Protein Recognition by Dual KH1/2 Domains of the Neuronal Splicing Factor Nova-1

scientific article

Publisher Correction: Small molecule inhibition of cGAS reduces interferon expression in primary macrophages from autoimmune mice.

scientific article published on 23 November 2017

RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme

scientific article

RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers

scientific article published on 05 May 2020

RecA-Binding pilE G4 Sequence Essential for Pilin Antigenic Variation Forms Monomeric and 5′ End-Stacked Dimeric Parallel G-Quadruplexes

scientific article

Recognition of small interfering RNA by a viral suppressor of RNA silencing

scientific article

Ribosome-associated factor Y adopts a fold resembling a double-stranded RNA binding domain scaffold

scientific article

Ribozymes, riboswitches and beyond: regulation of gene expression without proteins

scientific article

SMARCA3, a chromatin-remodeling factor, is required for p11-dependent antidepressant action

scientific article

SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation

scientific article

Small molecule inhibition of cGAS reduces interferon expression in primary macrophages from autoimmune mice

scientific article published on 29 September 2017

Small-molecule targeting of MUSASHI RNA-binding activity in acute myeloid leukemia.

scientific article

Solution Structure of a Unique G-Quadruplex Scaffold Adopted by a Guanosine-Rich Human Intronic Sequence

scientific article

Solution structures of all parallel-stranded monomeric and dimeric G-quadruplex scaffolds of the human c-kit2 promoter

scientific article

Stepwise translocation of Dpo4 polymerase during error-free bypass of an oxoG lesion

scientific article

Structural Basis for Lower Lysine Methylation State-Specific Readout by MBT Repeats of L3MBTL1 and an Engineered PHD Finger

scientific article

Structural Basis for Recognition of H3T3ph and Smac/DIABLO N-terminal Peptides by Human Survivin ⬇️

scientific article published on January 11, 2012

Structural Basis of mRNA Recognition and Cleavage by Toxin MazF and Its Regulation by Antitoxin MazE in Bacillus subtilis

scientific article

Structural Determination and Tryptophan Fluorescence of Heterokaryon Incompatibility C2 Protein (HET-C2), a Fungal Glycolipid Transfer Protein (GLTP), Provide Novel Insights into Glycolipid Specificity and Membrane Interaction by the GLTP Fold

scientific article

Structural Insights into Ligand Recognition by a Sensing Domain of the Cooperative Glycine Riboswitch

scientific article

Structural Insights into RNA Recognition by the Alternate-Splicing Regulator CUG-Binding Protein 1 ⬇️

scientific article published on October 13, 2010

Structural and functional insights into 5′-ppp RNA pattern recognition by the innate immune receptor RIG-I

scientific article

Structural basis for glycosphingolipid transfer specificity

scientific article

Structural basis for overhang-specific small interfering RNA recognition by the PAZ domain

scientific article

Structural basis for piRNA 2'-O-methylated 3'-end recognition by Piwi PAZ (Piwi/Argonaute/Zwille) domains

scientific article

Structural basis for recognition and sequestration of UUU(OH) 3' temini of nascent RNA polymerase III transcripts by La, a rheumatic disease autoantigen

scientific article

Structural basis underlying CAC RNA recognition by the RRM domain of dimeric RNA-binding protein RBPMS

scientific article

Structural insights into RNA recognition by the alternative-splicing regulator muscleblind-like MBNL1

scientific article

Structural insights into amino acid binding and gene control by a lysine riboswitch

scientific article

Structural insights into lipid-dependent reversible dimerization of human GLTP

scientific article

Structural principles of nucleoside selectivity in a 2′-deoxyguanosine riboswitch ⬇️

scientific article published on August 14, 2011

Structure of DNMT1-DNA Complex Reveals a Role for Autoinhibition in Maintenance DNA Methylation

scientific article

Structure of an Unprecedented G-Quadruplex Scaffold in the Human c-kit Promoter

scientific article

Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex

scientific article

Structure of the Human Telomere in K + Solution: A Stable Basket-Type G-Quadruplex with Only Two G-Tetrad Layers

scientific article

Structure of the guide-strand-containing argonaute silencing complex

scientific article

Structure of two intramolecular G-quadruplexes formed by natural human telomere sequences in K+ solution

scientific article

Structure of yeast Argonaute with guide RNA ⬇️

scientific article published on June 20, 2012

Structure-Based Mechanistic Insights into DNMT1-Mediated Maintenance DNA Methylation ⬇️

scientific article published on February 10, 2012

Structure-Function Analysis of STING Activation by c[G(2′,5′)pA(3′,5′)p] and Targeting by Antiviral DMXAA

scientific article

Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage

scientific article

Structure-function analysis of microRNA 3'-end trimming by Nibbler

scientific article published on 16 November 2020

Structure-function studies of STAR family Quaking proteins bound to their in vivo RNA target sites

scientific article

Structure-function studies of histone H3/H4 tetramer maintenance during transcription by chaperone Spt2 ⬇️

scientific article

Structure-function studies of nucleocytoplasmic transport of retroviral genomic RNA by mRNA export factor TAP

scientific article

TRIM24 links a non-canonical histone signature to breast cancer

scientific article

TUT7 controls the fate of precursor microRNAs by using three different uridylation mechanisms

scientific article published on 15 May 2015

The BAH domain of ORC1 links H4K20me2 to DNA replication licensing and Meier–Gorlin syndrome

scientific article

The BEN domain is a novel sequence-specific DNA-binding domain conserved in neural transcriptional repressors

scientific article

The CENP-T/-W complex is a binding partner of the histone chaperone FACT.

scientific article

The Card1 nuclease provides defence during type III CRISPR immunity

scientific article published on 18 January 2021

The Inside-Out Mechanism of Dicers from Budding Yeasts

scientific article

The liganding of glycolipid transfer protein is controlled by glycolipid acyl structure

scientific article

The nascent RNA binding complex SFiNX licenses piRNA-guided heterochromatin formation

scientific article published on 05 August 2019

Thermodynamic profiles and nuclear magnetic resonance studies of oligonucleotide duplexes containing single diastereomeric spiroiminodihydantoin lesions

scientific article

Two-repeat human telomeric d(TAGGGTTAGGGT) sequence forms interconverting parallel and antiparallel G-quadruplexes in solution: distinct topologies, thermodynamic properties, and folding/unfolding kinetics

scientific article

Uridylation by TUT4 and TUT7 marks mRNA for degradation

scientific article

WSTF regulates the H2A.X DNA damage response via a novel tyrosine kinase activity

scientific article

c-di-AMP binds the ydaO riboswitch in two pseudo-symmetry–related pockets

scientific article

List of works by Dinshaw J. Patel

A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer

A Poised Chromatin Platform for TGF-β Access to Master Regulators

A dual flip-out mechanism for 5mC recognition by the Arabidopsis SUVH5 SRA domain and its impact on DNA methylation and H3K9 dimethylation in vivo

A phage-encoded anti-CRISPR enables complete evasion of type VI-A CRISPR-Cas immunity

A selective jumonji H3K27 demethylase inhibitor modulates the proinflammatory macrophage response

A stable transcription factor complex nucleated by oligomeric AML1–ETO controls leukaemogenesis

ATRX ADD domain links an atypical histone methylation recognition mechanism to human mental-retardation syndrome

An Alpha Motif at Tas3 C Terminus Mediates RITS cis Spreading and Promotes Heterochromatic Gene Silencing

An H3K36 methylation-engaging Tudor motif of polycomb-like proteins mediates PRC2 complex targeting

Apramycin recognition by the human ribosomal decoding site

Arabidopsis Accelerated Cell Death 11, ACD11, Is a Ceramide-1-Phosphate Transfer Protein and Intermediary Regulator of Phytoceramide Levels

Binding of guide piRNA triggers methylation of the unstructured N-terminal region of Aub leading to assembly of the piRNA amplification complex

Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch

Cofactor-assisted dicing: insights from structural snapshots

Combination of antiviral drugs inhibits SARS-CoV-2 polymerase and exonuclease and demonstrates COVID-19 therapeutic potential in viral cell culture

Control of a neuronal morphology program by an RNA-binding zinc finger protein, Unkempt

Cryo-EM structure of DNA-bound Smc5/6 reveals DNA clamping enabled by multi-subunit conformational changes

Cucumber mosaic virus-encoded 2b suppressor inhibits Arabidopsis Argonaute1 cleavage activity to counter plant defense

Cyclic [G(2′,5′)pA(3′,5′)p] Is the Metazoan Second Messenger Produced by DNA-Activated Cyclic GMP-AMP Synthase

DAXX envelops a histone H3.3-H4 dimer for H3.3-specific recognition

DNA methylation pathways and their crosstalk with histone methylation

DNA-driven condensation assembles the meiotic DNA break machinery

DNMT1 reads heterochromatic H4K20me3 to reinforce LINE-1 DNA methylation

Development of human cGAS-specific small-molecule inhibitors for repression of dsDNA-triggered interferon expression

Dicer recognizes the 5' end of RNA for efficient and accurate processing

Differential nucleotide excision repair susceptibility of bulky DNA adducts in different sequence contexts: hierarchies of recognition signals

Direct readout of heterochromatic H3K9me3 regulates DNMT1-mediated maintenance DNA methylation

Dual Binding of Chromomethylase Domains to H3K9me2-Containing Nucleosomes Directs DNA Methylation in Plants

Encapsulating streptomycin within a small 40-mer RNA

Enhanced Selectivity for Sulfatide by Engineered Human Glycolipid Transfer Protein

Eukaryote-specific insertion elements control human ARGONAUTE slicer activity

Fluoride ion encapsulation by Mg2+ ions and phosphates in a fluoride riboswitch ⬇️

Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger

Impact of Conformational Heterogeneity of OxoG Lesions and Their Pairing Partners on Bypass Fidelity by Y Family Polymerases

Implications for Damage Recognition during Dpo4-Mediated Mutagenic Bypass of m1G and m3C Lesions ⬇️

Long-range pseudoknot interactions dictate the regulatory response in the tetrahydrofolate riboswitch ⬇️

Malignant brain tumor repeats: a three-leaved propeller architecture with ligand/peptide binding pockets

Mechanism of error-free and semitargeted mutagenic bypass of an aromatic amine lesion by Y-family polymerase Dpo4

Metabolite recognition principles and molecular mechanisms underlying riboswitch function

Molecular Mechanism of Action of Plant DRM De Novo DNA Methyltransferases

Molecular basis for site-specific read-out of histone H3K4me3 by the BPTF PHD finger of NURF

Molecular basis of nucleosomal H3K36 methylation by NSD methyltransferases

Molecular recognition and function of riboswitches

Multimeric assembly and biochemical characterization of the Trax–translin endonuclease complex

Non-vesicular trafficking by a ceramide-1-phosphate transfer protein regulates eicosanoids

Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes

PHD Finger Recognition of Unmodified Histone H3R2 Links UHRF1 to Regulation of Euchromatic Gene Expression ⬇️

Point mutational analysis of the liganding site in human glycolipid transfer protein. Functionality of the complex

Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1

Profile of Dinshaw J. Patel

Protein-RNA and Protein-Protein Recognition by Dual KH1/2 Domains of the Neuronal Splicing Factor Nova-1

Publisher Correction: Small molecule inhibition of cGAS reduces interferon expression in primary macrophages from autoimmune mice.

RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme

RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers

RecA-Binding pilE G4 Sequence Essential for Pilin Antigenic Variation Forms Monomeric and 5′ End-Stacked Dimeric Parallel G-Quadruplexes

Recognition of small interfering RNA by a viral suppressor of RNA silencing

Ribosome-associated factor Y adopts a fold resembling a double-stranded RNA binding domain scaffold

Ribozymes, riboswitches and beyond: regulation of gene expression without proteins

SMARCA3, a chromatin-remodeling factor, is required for p11-dependent antidepressant action

SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation

Small molecule inhibition of cGAS reduces interferon expression in primary macrophages from autoimmune mice

Small-molecule targeting of MUSASHI RNA-binding activity in acute myeloid leukemia.

Solution Structure of a Unique G-Quadruplex Scaffold Adopted by a Guanosine-Rich Human Intronic Sequence

Solution structures of all parallel-stranded monomeric and dimeric G-quadruplex scaffolds of the human c-kit2 promoter

Stepwise translocation of Dpo4 polymerase during error-free bypass of an oxoG lesion

Structural Basis for Lower Lysine Methylation State-Specific Readout by MBT Repeats of L3MBTL1 and an Engineered PHD Finger

Structural Basis for Recognition of H3T3ph and Smac/DIABLO N-terminal Peptides by Human Survivin ⬇️

Structural Basis of mRNA Recognition and Cleavage by Toxin MazF and Its Regulation by Antitoxin MazE in Bacillus subtilis

Structural Determination and Tryptophan Fluorescence of Heterokaryon Incompatibility C2 Protein (HET-C2), a Fungal Glycolipid Transfer Protein (GLTP), Provide Novel Insights into Glycolipid Specificity and Membrane Interaction by the GLTP Fold

Structural Insights into Ligand Recognition by a Sensing Domain of the Cooperative Glycine Riboswitch

Structural Insights into RNA Recognition by the Alternate-Splicing Regulator CUG-Binding Protein 1 ⬇️

Structural and functional insights into 5′-ppp RNA pattern recognition by the innate immune receptor RIG-I

Structural basis for glycosphingolipid transfer specificity

Structural basis for overhang-specific small interfering RNA recognition by the PAZ domain

Structural basis for piRNA 2'-O-methylated 3'-end recognition by Piwi PAZ (Piwi/Argonaute/Zwille) domains

Structural basis for recognition and sequestration of UUU(OH) 3' temini of nascent RNA polymerase III transcripts by La, a rheumatic disease autoantigen

Structural basis underlying CAC RNA recognition by the RRM domain of dimeric RNA-binding protein RBPMS

Structural insights into RNA recognition by the alternative-splicing regulator muscleblind-like MBNL1

Structural insights into amino acid binding and gene control by a lysine riboswitch