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Genetic Position III:0.06 +/- 0.006 cM (mapping data) Genomic Position III: 9002700 .. 9004750 bp

Genetic Position III:0.06 +/- 0.006 cM (mapping data) Genomic Position III: 9002700 .. 9004750 bp Where cM is centimorgans or map units (MU), distance between genes in terms of recombination frequency. 1: zif-1 ZInc Finger-interacting protein [ Caenorhabditis elegans ]

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Genetic Position III:0.06 +/- 0.006 cM (mapping data) Genomic Position III: 9002700 .. 9004750 bp

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  1. GeneticPosition III:0.06 +/- 0.006 cM(mapping data) • Genomic Position III: 9002700 .. 9004750 bp Where cM is centimorgans or map units (MU), distance between genes in terms of recombination frequency.

  2. 1: zif-1 ZInc Finger-interacting protein [ Caenorhabditis elegans ] GeneID: 176274 updated 07-Apr-2008 Summary Gene name zif-1 Gene description ZInc Finger-interacting protein Locus tag F59B2.6 Gene type protein coding RefSeq status Reviewed Organism Caenorhabditis elegans (strain: Bristol N2) Lineage Eukaryota; Metazoa; Nematoda; Chromadorea; Rhabditida; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis

  3. BLAST info 7 coding regions = 7 exons 6 in-between regions = 6 introns

  4. Amino Acid Sequence MSECSASTSQ LSTFCVNEIP WKLVPQTCDE FSEYEFIDEK YRRLSDVESF VWKWSPCGRY GIDLPGGRDV INQQLRDRMA VFDLHTNKWT LYTMDRGAFE IPRVCFLYWA RNDIIGTITL VKDYEAGPDD EIPLKFKQSF FYVSHETQTL VYSGSCKYRT NKTIVASYWY HIFENRRGEP FIDHNNYLWL VFSNGVDSLI LLPFIPTSTC FKAKCVSFDM NDIVSQFTGI RVFLDPFVSS HYVPWVYRND VNFFIRIDSH SFIEEQNRDY GLDPQIDNPE TKPHRGVFQL RVNLKDVIEK GEKDAIHAVN PETIETRFNR GDIELWRKIS DELRQEHQSI AQHGKMVVVQ RWSHFTVDMG LSKKMRTRVA DLDARDYCCS HKPRNSSFCC IDLDSERIKA VDALILGTDV VLPHPSGSVF LFRYKENYGM SYCELPFFQP LSLKLKCIQV LKESVEIDPS YYRIKCCLKM QEELEKETAE NLCTINIQQ http://www.wormbase.org/db/seq/protein?name=ZIF-1;class=protein Homology hits from a protein found on gene zif-1, and indicates e-values of top hits.

  5. Asymmetric Segregation of PIE-1 in C. elegans Is Mediated by Two Complementary Mechanisms that Act through Separate PIE-1 Protein Domains . • Molecular Cell , Volume 6 , Issue 2 , Pages 445 - 455 K . Reese , M . Dunn , J . Waddle , G. Seydoux Abstract The CCCH finger protein PIE-1 is a regulator of germ cell fate that segregates with the germ lineage in early embryos. At each asymmetric division, PIE-1 is inherited preferentially by the germline daughter and is excluded from the somatic daughter. We show that this asymmetry is regulated at the protein level by two complementary mechanisms. The first acts before cell division to enrich PIE-1 in the cytoplasm destined for the germline daughter. The second acts after cell division to eliminate any PIE-1 left in the somatic daughter. The latter mechanism depends on PIE-1's first CCCH finger (ZF1), which targets PIE-1 for degradation in somatic blastomeres. ZF1s in two other germline proteins, POS-1 and MEX-1, are also degraded in somatic blastomeres, suggesting that localized degradation also acts on these proteins to exclude them from somatic lineages.

  6. The gene was identified in a screen for maternal-effect mutant embryos that produce too many pharyngeal and intestinal cells, hence the name pie for "pharynx and intestine excess" (Mello et al., 1992). The excess of specific somatic cell types in mutant embryos is due to transformation of the P2 germline blastomere into a somatic blastomere like its sister EMS (Mello et al., 1992). Thus, is required for P2 to follow a germline fate instead of a somatic fate. PIE-1 is a CCCH-type zinc finger protein with a dynamic localization pattern in the early embryo (Mello et al., 1996; Figure 1). PIE-1 accumulates in the oocyte and 1-cell embryo and during each of the initial four divisions becomes enriched in the germline daughter (Figure 2B), by at least two mechanisms: pre-division enrichment in the cytoplasm destined for the germline daughter cell, and post-division degradation in the cytoplasm of the somatic daughter cell (Reese et al., 2000; DeRenzo et al., 2003; see Asymmetric cell division and axis formation in the embryo). The latter is accomplished by an elongin C/CUL-2 E3 ubiquitin ligase, which is targeted to by a bridging protein (ZIF-1) that interacts with both the E3 ligase complex and PIE-1's first zinc finger (DeRenzo et al., 2003). The association of some PIE-1 with P granules (Figure 2B and see below) and centrosomes is not required for its segregation to the germline blastomeres (Reese et al., 2000). Thus, PIE-1 is maternally provided, becomes enriched in each germline blastomere, and is required to maintain germline fate. Zif-1 seems to have been identified via screen at same time Pie-1was discovered (not 100% sure about this).

  7. In many animals, establishment of the germ line depends on segregation of a specialized cytoplasm, or 'germ plasm', to a small number of germline precursor cells during early embryogenesis. Germ plasm asymmetry involves targeting of RNAs and proteins to a specific region of the oocyte and/or embryo. Here we demonstrate that germ plasm asymmetry also depends on degradation of germline proteins in non-germline (somatic) cells. We show that five CCCH finger proteins, components of the Caenorhabditis elegans germ plasm, are targeted for degradation by the novel CCCH-finger-binding protein ZIF-1. ZIF-1 is a SOCS-box protein that interacts with the E3 ubiquitin ligase subunit elongin C. Elongin C, the cullin CUL-2, the ring finger protein RBX-1 and the E2 ubiquitin conjugation enzyme UBC5 (also known as LET-70) are all required in vivo for CCCH finger protein degradation. Degradation is activated in somatic cells by the redundant CCCH finger proteins MEX-5 and MEX-6, which are counteracted in the germ line by the PAR-1 kinase. We propose that segregation of the germ plasm involves both stabilization of germline proteins in the germ line and cullin-dependent degradation in the soma. Clicking on DeRenzo et al., 2003 Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.

  8. Above explains the function of gene zif-1, and implicates zif-1 in protein encoding (suppressor of cytokine signaling (SOCS) )

  9. Michael J. Haydon and Christopher S. Cobbett* Department of Genetics, University of Melbourne, Parkville, Victoria 3010, Australia Zinc (Zn) is an essential micronutrient required by all cellsbut is toxic in excess. We have identified three allelic Zn-sensitivemutants of Arabidopsis (Arabidopsis thaliana). The gene, designatedZINC-INDUCED FACILITATOR1 (ZIF1), encodes a member of the majorfacilitator superfamily of membrane proteins, which are foundin all organisms and transport a wide range of small, organicmolecules. Shoots of zif1mutants showed increased accumulationof Zn but not other metal ions. In combination with mutationsaffecting shoot-to-root Zn translocation, zif1 hma2 hma4 triplemutants accumulated less Zn than the wild type but remainedZn sensitive, suggesting that the zif1 Zn-sensitive phenotypeis due to altered Zn distribution. zif1mutants were also moresensitive to cadmium but less sensitive to nickel. ZIF1 promoter--glucuronidasefusions were expressed throughout the plant, with strongestexpression in young tissues, and predominantly in the vasculaturein older tissues. ZIF1 expression was highly induced by Zn and,to a lesser extent, by manganese. A ZIF1-green fluorescent proteinfusion protein localized to the tonoplast in transgenic plants.MTP1 has been identified as a tonoplast Zn transporter and azif1-1 mtp1-1 double mutant was more sensitive to Zn than eitherof the single mutants, suggesting ZIF1 influences a distinctmechanism of Zn homeostasis. Overexpression of ZIF1 conferredincreased Zn tolerance and interveinal leaf chlorosis in sometransgenic lines in which ZIF1 expression was high. We proposethat ZIF1 is involved in a novel mechanism of Zn sequestration,possibly by transport of a Zn ligand or a Zn ligand complexinto vacuoles. Zif-1 mutant phenotypes show up as an increased/decreased accumulation of zinc ions, effecting sensitivity to different elements/ions.

  10. Protein statistics: Length ……………………….489aa Estimated molecular weight .. 57.2 * Estimated Isoelectric Point ….6.07 ** Amino Acid Composition ALA ARG ASN ASP CYS GLN GLU GLY HIS ILE LEU LYS MET PHE PRO SEC* SER THR TRP TYR VAL 15 30 21 35 17 19 33 20 13 34 37 28 9 32 22 37 23 10 21 35 Main nameSequence nameother namesWBgeneID Zif-1 (zinc finger F59B2.6 (16) tag 6 (this) WBGene00006977 Interacting protein) Via person evidence: Geraldine Seydeux Concise Description:(12) *The molecular mass (abbreviated Mr) of a substance, formerly also called molecular weight and abbreviated as MW, is the mass of one molecule of that substance, relative to the unified atomic mass unit u (equal to 1/12 the mass of one atom of carbon-12). ** the pH at which a particular molecule or surface carries no net electrical charge

  11. Species ……….………....… Caenorhabditis elegans Sequence Type ………..….. Predicted coding sequence Corresponding Gene …..… Zif-1 (WBGene00006977) Origin ……………….…..… Wellcome Trust Sangar Institute, Cambridge UK Corresponding Protein …... WP:CE34193 (8) Sequence Method …………. Curated Source Clone ……………… F59B2 (clone report) Genomic Location ……..…. III:9,002,700 …. 9,004,446 Interpolated Gene Position..… III: 0.063874 Transcripts in this region ... F59B2.6 (this)

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