Cloning and characterization of HARP/SMARCAL1: a prokaryotic HepA-related SNF2 helicase protein from human and mouse.

The SNF2 gene family consists of a large group of proteins involved in transcriptional regulation, maintenance of chromosome integrity, and various aspects of DNA repair. We cloned a novel SNF2 family human cDNA, with sequence identity to the Escherichia coli RNA polymerase-binding protein HepA and named the human hepA-related protein (HHARP/SMARCAL1). In addition, the mouse ortholog (Mharp/Smarcal1) was cloned, and the Caenorhabditis elegans ortholog (CEHARP) was identified in the GenBank database. Phylogenetic analysis indicates that the HARP proteins share a high level of sequence similarity to the seven motif helicase core region (SNF2 domain) with identifiable orthologs in other eukaryotic species, except for yeast. Purified His-tagged HARP/SMARCAL1 protein exhibits single-stranded DNA-dependent ATPase activity, consistent with it being a member of the SNF2 family of proteins. Both the human and the mouse genes consist of 17 exons and 16 introns. The human gene maps to chromosome 2q34-q36, and the mouse gene is localized to the syntenic region of chromosome 1 (between markers Gls and Acrg). HARP/SMARCAL1 transcripts are ubiquitously expressed in human and mouse tissues, with testis presenting the highest levels of mRNA expression in humans.

[1]  K. Muegge,et al.  Characterization of gene expression, genomic structure, and chromosomal localization of Hells (Lsh). , 1998, Genomics.

[2]  D. Labuda,et al.  Genomic loci susceptible to replication errors in cancer cells. , 1998, British Journal of Cancer.

[3]  C. Peterson,et al.  Chromatin remodeling: a marriage between two families? , 1998, BioEssays : news and reviews in molecular, cellular and developmental biology.

[4]  J A Eisen,et al.  A phylogenomic study of the MutS family of proteins. , 1998, Nucleic acids research.

[5]  A. Eisen,et al.  Unraveling the role of helicases in transcription , 1998, BioEssays : news and reviews in molecular, cellular and developmental biology.

[6]  J. Lamerdin,et al.  Hex1: a new human Rad2 nuclease family member with homology to yeast exonuclease 1. , 1998, Nucleic acids research.

[7]  K. Severinov,et al.  Disruption of Escherichia coli HepA, an RNA Polymerase-associated Protein, Causes UV Sensitivity* , 1998, The Journal of Biological Chemistry.

[8]  D. Labuda,et al.  Chromosomal assignment of loci susceptible to replication errors by radiation hybrid mapping. , 1998, Mutation research.

[9]  M. Hall,et al.  Site-directed mutations in motif VI of Escherichia coli DNA helicase II result in multiple biochemical defects: evidence for the involvement of motif VI in the coupling of ATPase and DNA binding activities via conformational changes. , 1998, Journal of molecular biology.

[10]  D. Jin,et al.  RapA, a Novel RNA Polymerase-Associated Protein, Is a Bacterial Homolog of SWI2/SNF2* , 1998, The Journal of Biological Chemistry.

[11]  G. Waksman,et al.  Comparisons between the structures of HCV and Rep helicases reveal structural similarities between SF1 and SF2 super‐families of helicases , 1998, Protein science : a publication of the Protein Society.

[12]  A. Wolffe,et al.  The nucleosome: a powerful regulator of transcription. , 1998, Progress in nucleic acid research and molecular biology.

[13]  B. Cairns,et al.  Chromatin remodeling machines: similar motors, ulterior motives. , 1998, Trends in biochemical sciences.

[14]  T. Tsukiyama,et al.  Chromatin remodeling and transcription. , 1997, Current opinion in genetics & development.

[15]  James T Kadonaga,et al.  SWI2/SNF2 and Related Proteins: ATP-Driven Motors That Disrupt-Protein–DNA Interactions? , 1997, Cell.

[16]  Amos Bairoch,et al.  The PROSITE database, its status in 1997 , 1997, Nucleic Acids Res..

[17]  J. Lamerdin,et al.  ERCC4 (XPF) encodes a human nucleotide excision repair protein with eukaryotic recombination homologs , 1996, Molecular and cellular biology.

[18]  L. Ashworth,et al.  Detailed comparative map of human chromosome 19q and related regions of the mouse genome. , 1996, Genomics.

[19]  J. Buerstedde,et al.  Human and mouse homologs of the Saccharomyces cerevisiae RAD54 DNA repair gene: evidence for functional conservation , 1996, Current Biology.

[20]  M. Seldin,et al.  Human/mouse homology relationships. , 1996, Genomics.

[21]  M. Handel,et al.  A genetic strategy for differential screening of meiotic germ‐cell cDNA libraries , 1996, Molecular reproduction and development.

[22]  Kevin Karplus,et al.  A Flexible Motif Search Technique Based on Generalized Profiles , 1996, Comput. Chem..

[23]  Kevin Karplus,et al.  A ?ex-ible search technique based on generalized profiles , 1996 .

[24]  Amos Bairoch,et al.  The PROSITE database, its status in 1995 , 1996, Nucleic Acids Res..

[25]  J A Eisen,et al.  Evolution of the SNF2 family of proteins: subfamilies with distinct sequences and functions. , 1995, Nucleic acids research.

[26]  D. Higgs,et al.  Mutations in a putative global transcriptional regulator cause X-linked mental retardation with α-thalassemia (ATR-X syndrome) , 1995, Cell.

[27]  R. Durbin,et al.  2.2 Mb of contiguous nucleotide sequence from chromosome III of C. elegans , 1994, Nature.

[28]  E V Koonin,et al.  A common set of conserved motifs in a vast variety of putative nucleic acid-dependent ATPases including MCM proteins involved in the initiation of eukaryotic DNA replication. , 1993, Nucleic acids research.

[29]  Eugene V. Koonin,et al.  Helicases: amino acid sequence comparisons and structure-function relationships , 1993 .

[30]  P Bork,et al.  An expanding family of helicases within the 'DEAD/H' superfamily. , 1993, Nucleic acids research.

[31]  J. Hoeijmakers,et al.  ERCC6, a member of a subfamily of putative helicases, is involved in Cockayne's syndrome and preferential repair of active genes , 1992, Cell.

[32]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[33]  L. Hood,et al.  A common language for physical mapping of the human genome. , 1989, Science.

[34]  R. Tjian,et al.  Transcriptional regulation in mammalian cells by sequence-specific DNA binding proteins. , 1989, Science.

[35]  V. Blinov,et al.  Two related superfamilies of putative helicases involved in replication, recombination, repair and expression of DNA and RNA genomes. , 1989, Nucleic acids research.

[36]  C. Richardson,et al.  DNA-dependent nucleoside 5'-triphosphatase activity of the gene 4 protein of bacteriophage T7. , 1983, The Journal of biological chemistry.