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Q9M384

- SCR_ARATH

UniProt

Q9M384 - SCR_ARATH

Protein

Protein SCARECROW

Gene

SCR

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 85 (01 Oct 2014)
      Sequence version 1 (01 Oct 2000)
      Previous versions | rss
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    Functioni

    Transcription factor required for quiescent center cells specification and maintenance of surrounding stem cells, and for the asymmetric cell division involved in radial pattern formation in roots. Essential for cell division but not differentiation of the ground tissue. Also required for normal shoot gravitropism. Regulates the radial organization of the shoot axial organs. Binds to the promoter of MGP, NUC, RLK and SCL3. Restricts SHR movment and sequesters it into the nucleus of the endodermis.9 Publications

    GO - Molecular functioni

    1. protein binding Source: IntAct
    2. sequence-specific DNA binding Source: TAIR
    3. sequence-specific DNA binding transcription factor activity Source: TAIR

    GO - Biological processi

    1. asymmetric cell division Source: TAIR
    2. gravitropism Source: TAIR
    3. maintenance of protein location in nucleus Source: TAIR
    4. radial pattern formation Source: TAIR
    5. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Developmental protein

    Keywords - Biological processi

    Transcription, Transcription regulation

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Protein SCARECROW
    Short name:
    AtSCR
    Alternative name(s):
    GRAS family protein 20
    Short name:
    AtGRAS-20
    Protein SHOOT GRAVITROPISM 1
    Gene namesi
    Name:SCR
    Synonyms:SGR1
    Ordered Locus Names:At3g54220
    ORF Names:F24B22.180
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 3

    Organism-specific databases

    TAIRiAT3G54220.

    Subcellular locationi

    GO - Cellular componenti

    1. nucleus Source: TAIR

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Disruption phenotypei

    Plants have a greatly reduced root length and only a single cell layer between the epidermis and the pericycle. The sgrl-1 mutant has no gravitropic response either in inflorescence stems or in hypocotyls.4 Publications

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi490 – 653164Missing in scr-3/sgr1-1; loss of shoot gravitropism. 1 PublicationAdd
    BLAST

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 653653Protein SCARECROWPRO_0000329415Add
    BLAST

    Proteomic databases

    PRIDEiQ9M384.

    Expressioni

    Tissue specificityi

    Expressed in siliques, leaves and roots. Detected in the initial daughter cell before its asymmetric division and remains expressed only in the endodermal cell layer after the division. Expressed in the endodermis or starch sheath of the seedling hypocotyl, in the leaf bundle sheath cells and the root quiescent center.5 Publications

    Developmental stagei

    Detected in the ground tissue of late heart-stage embryos. After germination, expressed also in the L1 layer throughout the shoot apical meristem including the peripheral zone. Detected in most tissues of young leaf primordia, except in the presumptive vasculature. In mature leaves, expressed in bundle sheath cells. Detected in inflorescence stems in a single internal cell layer corresponding to the starch sheath.2 Publications

    Inductioni

    Up-regulated by SHR and by itself.3 Publications

    Gene expression databases

    GenevestigatoriQ9M384.

    Interactioni

    Subunit structurei

    Interacts with SHR, JKD and MGP.4 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    MGPQ9ZWA63EBI-1250484,EBI-1568600
    RBR1Q9LKZ34EBI-1250484,EBI-398590
    SHRQ9SZF711EBI-1250484,EBI-1250472

    Protein-protein interaction databases

    BioGridi9906. 4 interactions.
    IntActiQ9M384. 20 interactions.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9M384.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Coiled coil

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Coiled coili262 – 28928Sequence AnalysisAdd
    BLAST

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi401 – 4055VHIID

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi12 – 4029Pro-richAdd
    BLAST
    Compositional biasi22 – 287Poly-Ser
    Compositional biasi132 – 1387Poly-Ser
    Compositional biasi194 – 1974Poly-Ser
    Compositional biasi218 – 24023Gln-richAdd
    BLAST
    Compositional biasi232 – 2365Poly-Pro

    Sequence similaritiesi

    Belongs to the GRAS family.Curated

    Keywords - Domaini

    Coiled coil

    Phylogenomic databases

    eggNOGiNOG311437.
    HOGENOMiHOG000238577.
    InParanoidiQ9M384.
    OMAiSEMSSNP.
    PhylomeDBiQ9M384.

    Family and domain databases

    InterProiIPR005202. TF_GRAS.
    [Graphical view]
    PfamiPF03514. GRAS. 1 hit.
    [Graphical view]
    PROSITEiPS50985. GRAS. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9M384-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAESGDFNGG QPPPHSPLRT TSSGSSSSNN RGPPPPPPPP LVMVRKRLAS    50
    EMSSNPDYNN SSRPPRRVSH LLDSNYNTVT PQQPPSLTAA ATVSSQPNPP 100
    LSVCGFSGLP VFPSDRGGRN VMMSVQPMDQ DSSSSSASPT VWVDAIIRDL 150
    IHSSTSVSIP QLIQNVRDII FPCNPNLGAL LEYRLRSLML LDPSSSSDPS 200
    PQTFEPLYQI SNNPSPPQQQ QQHQQQQQQH KPPPPPIQQQ ERENSSTDAP 250
    PQPETVTATV PAVQTNTAEA LRERKEEIKR QKQDEEGLHL LTLLLQCAEA 300
    VSADNLEEAN KLLLEISQLS TPYGTSAQRV AAYFSEAMSA RLLNSCLGIY 350
    AALPSRWMPQ THSLKMVSAF QVFNGISPLV KFSHFTANQA IQEAFEKEDS 400
    VHIIDLDIMQ GLQWPGLFHI LASRPGGPPH VRLTGLGTSM EALQATGKRL 450
    SDFADKLGLP FEFCPLAEKV GNLDTERLNV RKREAVAVHW LQHSLYDVTG 500
    SDAHTLWLLQ RLAPKVVTVV EQDLSHAGSF LGRFVEAIHY YSALFDSLGA 550
    SYGEESEERH VVEQQLLSKE IRNVLAVGGP SRSGEVKFES WREKMQQCGF 600
    KGISLAGNAA TQATLLLGMF PSDGYTLVDD NGTLKLGWKD LSLLTASAWT 650
    PRS 653
    Length:653
    Mass (Da):71,506
    Last modified:October 1, 2000 - v1
    Checksum:i009A4C48C6DA0616
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti454 – 4541A → T in AAB06318. (PubMed:8756724)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U62798 Genomic DNA. Translation: AAB06318.1.
    AL132957 Genomic DNA. Translation: CAB70996.1.
    CP002686 Genomic DNA. Translation: AEE79200.1.
    AY056315 mRNA. Translation: AAL07164.1.
    AY080840 mRNA. Translation: AAL87315.1.
    AY113991 mRNA. Translation: AAM45039.1.
    PIRiT47581.
    T51244.
    RefSeqiNP_190990.1. NM_115282.3.
    UniGeneiAt.71814.
    At.932.

    Genome annotation databases

    EnsemblPlantsiAT3G54220.1; AT3G54220.1; AT3G54220.
    GeneIDi824589.
    KEGGiath:AT3G54220.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U62798 Genomic DNA. Translation: AAB06318.1 .
    AL132957 Genomic DNA. Translation: CAB70996.1 .
    CP002686 Genomic DNA. Translation: AEE79200.1 .
    AY056315 mRNA. Translation: AAL07164.1 .
    AY080840 mRNA. Translation: AAL87315.1 .
    AY113991 mRNA. Translation: AAM45039.1 .
    PIRi T47581.
    T51244.
    RefSeqi NP_190990.1. NM_115282.3.
    UniGenei At.71814.
    At.932.

    3D structure databases

    ProteinModelPortali Q9M384.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 9906. 4 interactions.
    IntActi Q9M384. 20 interactions.

    Proteomic databases

    PRIDEi Q9M384.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT3G54220.1 ; AT3G54220.1 ; AT3G54220 .
    GeneIDi 824589.
    KEGGi ath:AT3G54220.

    Organism-specific databases

    GeneFarmi 4242. 427.
    TAIRi AT3G54220.

    Phylogenomic databases

    eggNOGi NOG311437.
    HOGENOMi HOG000238577.
    InParanoidi Q9M384.
    OMAi SEMSSNP.
    PhylomeDBi Q9M384.

    Gene expression databases

    Genevestigatori Q9M384.

    Family and domain databases

    InterProi IPR005202. TF_GRAS.
    [Graphical view ]
    Pfami PF03514. GRAS. 1 hit.
    [Graphical view ]
    PROSITEi PS50985. GRAS. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The SCARECROW gene regulates an asymmetric cell division that is essential for generating the radial organization of the Arabidopsis root."
      Di Laurenzio L., Wysocka-Diller J.W., Malamy J.E., Pysh L.D., Helariutta Y., Freshour G., Hahn M.G., Feldmann K.A., Benfey P.N.
      Cell 86:423-433(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], DISRUPTION PHENOTYPE, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
      Strain: cv. Columbia.
    2. "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana."
      Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F.
      , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
      Nature 408:820-822(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Columbia.
    3. The Arabidopsis Information Resource (TAIR)
      Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
      Cited for: GENOME REANNOTATION.
      Strain: cv. Columbia.
    4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
      Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
      , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
      Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: cv. Columbia.
    5. "SGR1, SGR2, SGR3: novel genetic loci involved in shoot gravitropism in Arabidopsis thaliana."
      Fukaki H., Fujisawa H., Tasaka M.
      Plant Physiol. 110:945-955(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DISRUPTION PHENOTYPE.
      Strain: cv. Columbia.
    6. "Analysis of SCARECROW expression using a rapid system for assessing transgene expression in Arabidopsis roots."
      Malamy J.E., Benfey P.N.
      Plant J. 12:957-963(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, TISSUE SPECIFICITY.
    7. "Genetic evidence that the endodermis is essential for shoot gravitropism in Arabidopsis thaliana."
      Fukaki H., Wysocka-Diller J.W., Kato T., Fujisawa H., Benfey P.N., Tasaka M.
      Plant J. 14:425-430(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION, FUNCTION, DISRUPTION PHENOTYPE, MUTAGENESIS OF 490-TRP--SER-653.
    8. "Molecular analysis of SCARECROW function reveals a radial patterning mechanism common to root and shoot."
      Wysocka-Diller J.W., Helariutta Y., Fukaki H., Malamy J.E., Benfey P.N.
      Development 127:595-603(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DISRUPTION PHENOTYPE, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY.
    9. "The SHORT-ROOT gene controls radial patterning of the Arabidopsis root through radial signaling."
      Helariutta Y., Fukaki H., Wysocka-Diller J.W., Nakajima K., Jung J., Sena G., Hauser M.-T., Benfey P.N.
      Cell 101:555-567(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: INDUCTION, TISSUE SPECIFICITY.
    10. "Intercellular movement of the putative transcription factor SHR in root patterning."
      Nakajima K., Sena G., Nawy T., Benfey P.N.
      Nature 413:307-311(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: INDUCTION, TISSUE SPECIFICITY.
    11. "SCARECROW is involved in positioning the stem cell niche in the Arabidopsis root meristem."
      Sabatini S., Heidstra R., Wildwater M., Scheres B.
      Genes Dev. 17:354-358(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    12. "A broad competence to respond to SHORT ROOT revealed by tissue-specific ectopic expression."
      Sena G., Jung J.W., Benfey P.N.
      Development 131:2817-2826(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    13. "Mosaic analyses using marked activation and deletion clones dissect Arabidopsis SCARECROW action in asymmetric cell division."
      Heidstra R., Welch D., Scheres B.
      Genes Dev. 18:1964-1969(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INDUCTION.
    14. Cited for: FUNCTION, INTERACTION WITH SHR.
    15. "An evolutionarily conserved mechanism delimiting SHR movement defines a single layer of endodermis in plants."
      Cui H., Levesque M.P., Vernoux T., Jung J.W., Paquette A.J., Gallagher K.L., Wang J.Y., Blilou I., Scheres B., Benfey P.N.
      Science 316:421-425(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH SHR.
    16. "Arabidopsis JACKDAW and MAGPIE zinc finger proteins delimit asymmetric cell division and stabilize tissue boundaries by restricting SHORT-ROOT action."
      Welch D., Hassan H., Blilou I., Immink R., Heidstra R., Scheres B.
      Genes Dev. 21:2196-2204(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH SHR; JKD AND MGP.
    17. Cited for: INTERACTION WITH SHR.

    Entry informationi

    Entry nameiSCR_ARATH
    AccessioniPrimary (citable) accession number: Q9M384
    Secondary accession number(s): Q96304
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 8, 2008
    Last sequence update: October 1, 2000
    Last modified: October 1, 2014
    This is version 85 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3