Modeling of Flap Endonuclease Interactions with DNA Substrate (Q38355371)

2 September 2017

title

Modeling of flap endonuclease interactions with DNA substrate (English)

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2 September 2017

Modeling of Flap Endonuclease Interactions with DNA Substrate (English)

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26 December 2023

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26 December 2023

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26 December 2023

3

Alexey V. Onufriev

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26 December 2023

author name string

Wu-Po Ma

4

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2 September 2017

Hatim T. Allawi

1

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26 December 2023

Michael W. Kaiser

2

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26 December 2023

Andrew E. Brogaard

5

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26 December 2023

David A. Case

6

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26 December 2023

Bruce P. Neri

7

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26 December 2023

Victor I. Lyamichev

8

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26 December 2023

publication date

1 May 2003

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2 September 2017

2 May 2003

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National Center for Biotechnology Information

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=12706715

https://api.elsevier.com/content/article/PII:S0022283603003516?httpAccept=text/xml

26 December 2023

language of work or name

English

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work available at URL

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https://api.elsevier.com/content/article/PII:S0022283603003516?httpAccept=text/plain

26 December 2023

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Journal of Molecular Biology

26 December 2023

published in

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2 September 2017

volume

328

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2 September 2017

issue

3

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2 September 2017

page(s)

537-554

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Proteolytic cleavage of DNA polymerase from Escherichia Coli B into an exonuclease unit and a polymerase unit

2 September 2017

cites work

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Structure-Specific Endonucleolytic Cleavage of Nucleic Acids by Eubacterial DNA Polymerases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Newly discovered archaebacterial flap endonucleases show a structure-specific mechanism for DNA substrate binding and catalysis resembling human flap endonuclease-1.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

The crystal structure of flap endonuclease-1 from Methanococcus jannaschii

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

A comparison of eubacterial and archaeal structure-specific 5'-exonucleases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Yeast excision repair gene RAD2 encodes a single-stranded DNA endonuclease

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Functional domains within FEN-1 and RAD2 define a family of structure-specific endonucleases: implications for nucleotide excision repair

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Deoxyribonuclease IV: a new exonuclease from mammalian tissues

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

The characterization of a mammalian DNA structure-specific endonuclease

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Transient generation of displaced single-stranded DNA during nick translation

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Structural and functional conservation of the human homolog of the Schizosaccharomyces pombe rad2 gene, which is required for chromosome segregation and recovery from DNA damage

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

XPG endonuclease makes the 3' incision in human DNA nucleotide excision repair

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

The kinetics of oligonucleotide replacements

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Comparison of the 5' nuclease activities of taq DNA polymerase and its isolated nuclease domain

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Cleavage specificity of Saccharomyces cerevisiae flap endonuclease 1 suggests a double-flap structure as the cellular substrate

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Structure of the DNA repair and replication endonuclease and exonuclease FEN-1: coupling DNA and PCNA binding to FEN-1 activity

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Molecular structure and novel DNA binding sites located in loops of flap endonuclease-1 from Pyrococcus horikoshii

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Crystal structure of Thermus aquaticus DNA polymerase

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

A helical arch allowing single-stranded DNA to thread through T5 5'-exonuclease

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Structure of bacteriophage T4 RNase H, a 5' to 3' RNA-DNA and DNA-DNA exonuclease with sequence similarity to the RAD2 family of eukaryotic proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Essential amino acids for substrate binding and catalysis of human flap endonuclease 1

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Calf 5' to 3' exo/endonuclease must slide from a 5' end of the substrate to perform structure-specific cleavage

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Effect of flap modifications on human FEN1 cleavage

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

The helix-hairpin-helix DNA-binding motif: a structural basis for non-sequence-specific recognition of DNA.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Common fold in helix-hairpin-helix proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Novel DNA binding motifs in the DNA repair enzyme endonuclease III crystal structure

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Crystal structures of human DNA polymerase beta complexed with DNA: implications for catalytic mechanism, processivity, and fidelity

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Functional analysis of point mutations in human flap endonuclease-1 active site

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Identification of Residues of T4 RNase H Required for Catalysis and DNA Binding

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Biochemical and mutational studies of the 5'-3' exonuclease of DNA polymerase I of Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Mutagenesis of conserved lysine residues in bacteriophage T5 5'-3' exonuclease suggests separate mechanisms of endo-and exonucleolytic cleavage

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Arginine residues 47 and 70 of human flap endonuclease-1 are involved in DNA substrate interactions and cleavage site determination

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Interactions of mutant and wild-type flap endonucleases with oligonucleotide substrates suggest an alternative model of DNA binding

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Evaluation of methylphosphonates as analogs for detecting phosphate contacts in RNA-protein complexes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Methylphosphonates as probes of protein-nucleic acid interactions.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Bipartite DNA recognition by the human Oct-2 POU domain: POUs-specific phosphate contacts are analogous to those of bacteriophage lambda repressor

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Probing contacts to the DNA backbone in the trp repressor-operator sequence-specific protein-nucleic acid complex using diastereomeric methylphosphonate analogues

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

An important 2'-OH group for an RNA-protein interaction

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Methylphosphonate mapping of phosphate contacts critical for RNA recognition by the human immunodeficiency virus tat and rev proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Effects of phosphate neutralization on the shape of the AP-1 transcription factor binding site in duplex DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Crystal structure of CATGGCCATG and its implications for A-tract bending models

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Crystal Structures of Human DNA Polymerase β Complexed with Gapped and Nicked DNA: Evidence for an Induced Fit Mechanism,

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

DNA bending and a flip-out mechanism for base excision by the helix–hairpin–helix DNA glycosylase, Escherichia coli AlkA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Contacts between the 5' nuclease of DNA polymerase I and its DNA substrate.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Structure-specific DNA cleavage by 5' nucleases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Structure of DNA polymerase I Klenow fragment bound to duplex DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Structure of the C-terminal RNA-binding domain of hnRNP D0 (AUF1), its interactions with RNA and DNA, and change in backbone dynamics upon complex formation with DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Modifying the specificity of an RNA backbone contact

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Human flap endonuclease-1: conformational change upon binding to the flap DNA substrate and location of the Mg2+ binding site

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

pi-Stacking interactions. Alive and well in proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Okazaki fragment processing: modulation of the strand displacement activity of DNA polymerase delta by the concerted action of replication protein A, proliferating cell nuclear antigen, and flap endonuclease-1.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

RPA governs endonuclease switching during processing of Okazaki fragments in eukaryotes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Absorption and circular dichroism spectroscopy of nucleic acid duplexes and triplexes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Theory and applications of the generalized Born solvation model in macromolecular simulations

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2803%2900351-6

Properties of overexpressed phage T5 D15 exonuclease. Similarities with Escherichia coli DNA polymerase I 5'-3' exonuclease

7 January 2021

2

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)00351-6

A new force field for molecular mechanical simulation of nucleic acids and proteins

26 December 2023

63

1 reference

https://api.crossref.org/works/10.1016/S0022-2836(03)00351-6

26 December 2023

Identifiers

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2 September 2017

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