Crystal Structures of the F and pSLT Plasmid TraJ N-Terminal Regions Reveal Similar Homodimeric PAS Folds with Functional Interchangeability

Lu, Jun; Wu, Ruiying; Adkins, Joshua N.; Joachimiak, Andrzej; Glover, J. N. Mark

doi:10.1021/bi500244m

Title: Crystal Structures of the F and pSLT Plasmid TraJ N-Terminal Regions Reveal Similar Homodimeric PAS Folds with Functional Interchangeability

Authors:

Lu, Jun ^[1]; Wu, Ruiying ^[2]; Adkins, Joshua N. ^[3]; Joachimiak, Andrzej ^[2]; Glover, J. N. Mark ^[1]

Department of Biochemistry, University of Alberta, Edmonton, Alberta T6G 2H7, Canada
Midwest Center for Structural Genomics and Structural Biology Center, Biosciences, Argonne National Laboratory, Argonne, Illinois 60439, United States
Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States

Publication Date:: 2014-09-02

Sponsoring Org.:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

OSTI Identifier:: 1154673

Grant/Contract Number:: AC02-06CH11357

Resource Type:: Published Article

Journal Name:: Biochemistry

Additional Journal Information:: Journal Name: Biochemistry Journal Volume: 53 Journal Issue: 36; Journal ID: ISSN 0006-2960

Publisher:: American Chemical Society

Country of Publication:: United States

Language:: English

Citation Formats


                    Lu, Jun, Wu, Ruiying, Adkins, Joshua N., Joachimiak, Andrzej, and Glover, J. N. Mark. Crystal Structures of the F and pSLT Plasmid TraJ N-Terminal Regions Reveal Similar Homodimeric PAS Folds with Functional Interchangeability.  United States: N. p., 2014. 
Web.  doi:10.1021/bi500244m.

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                    Lu, Jun, Wu, Ruiying, Adkins, Joshua N., Joachimiak, Andrzej, & Glover, J. N. Mark. Crystal Structures of the F and pSLT Plasmid TraJ N-Terminal Regions Reveal Similar Homodimeric PAS Folds with Functional Interchangeability.  United States.  https://doi.org/10.1021/bi500244m

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                    Lu, Jun, Wu, Ruiying, Adkins, Joshua N., Joachimiak, Andrzej, and Glover, J. N. Mark. Tue .  
"Crystal Structures of the F and pSLT Plasmid TraJ N-Terminal Regions Reveal Similar Homodimeric PAS Folds with Functional Interchangeability".  United States.  https://doi.org/10.1021/bi500244m.

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@article{osti_1154673,

  title        = {Crystal Structures of the F and pSLT Plasmid TraJ N-Terminal Regions Reveal Similar Homodimeric PAS Folds with Functional Interchangeability},

  author       = {Lu, Jun and Wu, Ruiying and Adkins, Joshua N. and Joachimiak, Andrzej and Glover, J. N. Mark},

  abstractNote = {},

  doi          = {10.1021/bi500244m},

  journal      = {Biochemistry},

  number       = 36,

  volume       = 53,

  place        = {United States},

  year         = {2014},

  month        = {9}

}

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Title: Crystal Structures of the F and pSLT Plasmid TraJ N-Terminal Regions Reveal Similar Homodimeric PAS Folds with Functional Interchangeability

Citation Formats

Site-directed mutagenesis by overlap extension using the polymerase chain reaction journal, April 1989

Regulation of traJ transcription in the Salmonella virulence plasmid by strand-specific DNA adenine hemimethylation: Regulation of traJ transcription by Dam methylation journal, August 2005

A PAS domain within F plasmid TraJ is critical for its function as a transcriptional activator journal, August 2011

A bacteriophage T7 RNA polymerase/promoter system for controlled exclusive expression of specific genes. journal, February 1985

New tools for structure refinement in PHENIX journal, August 2010

Activation of the Cpx regulon destabilizes the F plasmid transfer activator, TraJ, via the HslVU protease in Escherichia coli journal, February 2008

Automated structure solution, density modification and model building for MAD, SAD and MIR journal, August 2002

PAS Domains: Internal Sensors of Oxygen, Redox Potential, and Light journal, June 1999

Ligand-Binding PAS Domains in a Genomic, Cellular, and Structural Context journal, October 2011

Studies on transformation of Escherichia coli with plasmids journal, June 1983

A short history of SHELX journal, December 2007

Structure of a biological oxygen sensor: A new mechanism for heme-driven signal transduction journal, December 1998

The crystal structure of Tm 5 Re 2 O 12 journal, December 1999

GroEL Plays a Central Role in Stress-Induced Negative Regulation of Bacterial Conjugation by Promoting Proteolytic Degradation of the Activator Protein TraJ journal, August 2007

Ligation-independent cloning of PCR products (LIC-PCR) journal, January 1990

Spherically averaged phased translation function and its applications to search of molecules and fragments in the macromolecular electron density maps journal, August 2000

Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants the Keio collection journal, February 2006

The Positive Regulator, TraJ, of the Escherichia coli F Plasmid Is Unstable in a cpxA * Background journal, October 2002

Fertility repression of F-like conjugative plasmids: Physical mapping of the R6-5 finO and finP cistrons and identification of the finO protein journal, December 1978

Error-Prone PCR Mutagenesis Reveals Functional Domains of a Bacterial Transcriptional Activator, TraJ journal, July 2012

Structure and Signaling Mechanism of Per-ARNT-Sim Domains journal, October 2009

Construction of vectors with the pl5a replicon, kanamycin resistance, inducible lacZ α and pUC18 or pUC19 multiple cloning sites journal, January 1990

High-throughput protein purification and quality assessment for crystallization journal, September 2011

Hfq Is a Regulator of F-Plasmid TraJ and TraM Synthesis in Escherichia coli journal, January 2006

Genetic mapping of regulator gene phoS for alkaline phosphatase in Escherichia coli journal, March 1968

The interpretation of protein structures: Estimation of static accessibility journal, February 1971

Crystal Structure and Interactions of the PAS Repeat Region of the Drosophila Clock Protein PERIOD journal, January 2005

A New Vector for High-Throughput, Ligation-Independent Cloning Encoding a Tobacco Etch Virus Protease Cleavage Site journal, June 2002

DNA Processing Reactions in Bacterial Conjugation journal, June 1995

Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7 journal, June 2008

The F plasmid transfer activator TraJ is a dimeric helix-turn-helix DNA-binding protein: F TraJ binds DNA in vivo journal, August 2010

Mammalian Per-Arnt-Sim Proteins in Environmental Adaptation journal, March 2010

CASTp: computed atlas of surface topography of proteins with structural and topographical mapping of functionally annotated residues journal, July 2006

Conjugal transfer of the virulence plasmid of Salmonella enterica is regulated by the leucine-responsive regulatory protein and DNA adenine methylation: Control of conjugal transfer by Lrp and Dam methylation journal, June 2002

Automation of protein purification for structural genomics journal, March 2004

Analysis of the sequence and gene products of the transfer region of the F sex factor. journal, January 1994

Silencing and activating type IV secretion genes of the F-like conjugative resistance plasmid R1 journal, December 2013

[20] Processing of X-ray diffraction data collected in oscillation mode book, January 1997

The Cyclic AMP-Cyclic AMP Receptor Protein Complex Regulates Activity of the traJ Promoter of the Escherichia coli Conjugative Plasmid pRK100 journal, March 2003

The role of H-NS in silencing F transfer gene expression during entry into stationary phase: H-NS represses F traM and traJ journal, September 2004

FinO is an RNA chaperone that facilitates sense-antisense RNA interactions journal, December 2003

Regulation of the F plasmid tra Y promoter in Escherichia coli by host and plasmid factors journal, March 1991

Site-directed mutagenesis by overlap extension using the polymerase chain reaction
journal, April 1989

Regulation of traJ transcription in the Salmonella virulence plasmid by strand-specific DNA adenine hemimethylation: Regulation of traJ transcription by Dam methylation
journal, August 2005

A PAS domain within F plasmid TraJ is critical for its function as a transcriptional activator
journal, August 2011

A bacteriophage T7 RNA polymerase/promoter system for controlled exclusive expression of specific genes.
journal, February 1985

New tools for structure refinement in PHENIX
journal, August 2010

Activation of the Cpx regulon destabilizes the F plasmid transfer activator, TraJ, via the HslVU protease in Escherichia coli
journal, February 2008

Automated structure solution, density modification and model building for MAD, SAD and MIR
journal, August 2002

PAS Domains: Internal Sensors of Oxygen, Redox Potential, and Light
journal, June 1999

Ligand-Binding PAS Domains in a Genomic, Cellular, and Structural Context
journal, October 2011

Studies on transformation of Escherichia coli with plasmids
journal, June 1983

A short history of SHELX
journal, December 2007

Structure of a biological oxygen sensor: A new mechanism for heme-driven signal transduction
journal, December 1998

The crystal structure of Tm ₅ Re ₂ O ₁₂
journal, December 1999

GroEL Plays a Central Role in Stress-Induced Negative Regulation of Bacterial Conjugation by Promoting Proteolytic Degradation of the Activator Protein TraJ
journal, August 2007

Ligation-independent cloning of PCR products (LIC-PCR)
journal, January 1990

Spherically averaged phased translation function and its applications to search of molecules and fragments in the macromolecular electron density maps
journal, August 2000

Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants the Keio collection
journal, February 2006

The Positive Regulator, TraJ, of the Escherichia coli F Plasmid Is Unstable in a cpxA * Background
journal, October 2002

Fertility repression of F-like conjugative plasmids: Physical mapping of the R6-5 finO and finP cistrons and identification of the finO protein
journal, December 1978

Error-Prone PCR Mutagenesis Reveals Functional Domains of a Bacterial Transcriptional Activator, TraJ
journal, July 2012

Structure and Signaling Mechanism of Per-ARNT-Sim Domains
journal, October 2009

Construction of vectors with the pl5a replicon, kanamycin resistance, inducible lacZ α and pUC18 or pUC19 multiple cloning sites
journal, January 1990

High-throughput protein purification and quality assessment for crystallization
journal, September 2011

Hfq Is a Regulator of F-Plasmid TraJ and TraM Synthesis in Escherichia coli
journal, January 2006

Genetic mapping of regulator gene phoS for alkaline phosphatase in Escherichia coli
journal, March 1968

The interpretation of protein structures: Estimation of static accessibility
journal, February 1971

Crystal Structure and Interactions of the PAS Repeat Region of the Drosophila Clock Protein PERIOD
journal, January 2005

A New Vector for High-Throughput, Ligation-Independent Cloning Encoding a Tobacco Etch Virus Protease Cleavage Site
journal, June 2002

DNA Processing Reactions in Bacterial Conjugation
journal, June 1995

Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7
journal, June 2008

The F plasmid transfer activator TraJ is a dimeric helix-turn-helix DNA-binding protein: F TraJ binds DNA in vivo
journal, August 2010

Mammalian Per-Arnt-Sim Proteins in Environmental Adaptation
journal, March 2010

CASTp: computed atlas of surface topography of proteins with structural and topographical mapping of functionally annotated residues
journal, July 2006

Conjugal transfer of the virulence plasmid of Salmonella enterica is regulated by the leucine-responsive regulatory protein and DNA adenine methylation: Control of conjugal transfer by Lrp and Dam methylation
journal, June 2002

Automation of protein purification for structural genomics
journal, March 2004

Analysis of the sequence and gene products of the transfer region of the F sex factor.
journal, January 1994

Silencing and activating type IV secretion genes of the F-like conjugative resistance plasmid R1
journal, December 2013

[20] Processing of X-ray diffraction data collected in oscillation mode
book, January 1997

The Cyclic AMP-Cyclic AMP Receptor Protein Complex Regulates Activity of the traJ Promoter of the Escherichia coli Conjugative Plasmid pRK100
journal, March 2003

The role of H-NS in silencing F transfer gene expression during entry into stationary phase: H-NS represses F traM and traJ
journal, September 2004

FinO is an RNA chaperone that facilitates sense-antisense RNA interactions
journal, December 2003

Regulation of the F plasmid tra Y promoter in Escherichia coli by host and plasmid factors
journal, March 1991