Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Protein SCARECROW

Gene

SCR

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

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.11 Publications

GO - Molecular functioni

  • sequence-specific DNA binding Source: TAIR
  • sequence-specific DNA binding transcription factor activity Source: TAIR

GO - Biological processi

  • asymmetric cell division Source: TAIR
  • bundle sheath cell fate specification Source: TAIR
  • gravitropism Source: TAIR
  • leaf development Source: TAIR
  • maintenance of protein location in nucleus Source: TAIR
  • radial pattern formation Source: TAIR
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

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 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G54220.

Subcellular locationi

GO - Cellular componenti

  • nucleus Source: TAIR
Complete GO annotation...

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
Mutagenesisi295 – 2995LQCAE → AQCAA: Abolishes interaction with RBR1. 2 Publications
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

Interactioni

Subunit structurei

Interacts with SHR, JKD and MGP (PubMed:16640459, PubMed:17446396, PubMed:17785527, PubMed:18500650). Interacts with SIEL (PubMed:21924907). Interacts with RBR1 through its the LxCxE motif (PubMed:22921914, PubMed:24302889).7 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.
STRINGi3702.AT3G54220.1.

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
Motifi295 – 2995LxCxE motif2 Publications
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

        10         20         30         40         50
MAESGDFNGG QPPPHSPLRT TSSGSSSSNN RGPPPPPPPP LVMVRKRLAS
60 70 80 90 100
EMSSNPDYNN SSRPPRRVSH LLDSNYNTVT PQQPPSLTAA ATVSSQPNPP
110 120 130 140 150
LSVCGFSGLP VFPSDRGGRN VMMSVQPMDQ DSSSSSASPT VWVDAIIRDL
160 170 180 190 200
IHSSTSVSIP QLIQNVRDII FPCNPNLGAL LEYRLRSLML LDPSSSSDPS
210 220 230 240 250
PQTFEPLYQI SNNPSPPQQQ QQHQQQQQQH KPPPPPIQQQ ERENSSTDAP
260 270 280 290 300
PQPETVTATV PAVQTNTAEA LRERKEEIKR QKQDEEGLHL LTLLLQCAEA
310 320 330 340 350
VSADNLEEAN KLLLEISQLS TPYGTSAQRV AAYFSEAMSA RLLNSCLGIY
360 370 380 390 400
AALPSRWMPQ THSLKMVSAF QVFNGISPLV KFSHFTANQA IQEAFEKEDS
410 420 430 440 450
VHIIDLDIMQ GLQWPGLFHI LASRPGGPPH VRLTGLGTSM EALQATGKRL
460 470 480 490 500
SDFADKLGLP FEFCPLAEKV GNLDTERLNV RKREAVAVHW LQHSLYDVTG
510 520 530 540 550
SDAHTLWLLQ RLAPKVVTVV EQDLSHAGSF LGRFVEAIHY YSALFDSLGA
560 570 580 590 600
SYGEESEERH VVEQQLLSKE IRNVLAVGGP SRSGEVKFES WREKMQQCGF
610 620 630 640 650
KGISLAGNAA TQATLLLGMF PSDGYTLVDD NGTLKLGWKD LSLLTASAWT

PRS
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:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

ProteinModelPortaliQ9M384.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi9906. 4 interactions.
IntActiQ9M384. 20 interactions.
STRINGi3702.AT3G54220.1.

Proteomic databases

PRIDEiQ9M384.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

GeneFarmi4242. 427.
TAIRiAT3G54220.

Phylogenomic databases

eggNOGiNOG311437.
HOGENOMiHOG000238577.
InParanoidiQ9M384.
OMAiSEMSSNP.
PhylomeDBiQ9M384.

Miscellaneous databases

PROiQ9M384.

Family and domain databases

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

Publicationsi

« Hide 'large scale' publications
  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.
  18. "An essential protein that interacts with endosomes and promotes movement of the SHORT-ROOT transcription factor."
    Koizumi K., Wu S., MacRae-Crerar A., Gallagher K.L.
    Curr. Biol. 21:1559-1564(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SIEL.
  19. Cited for: FUNCTION, INTERACTION WITH RBR1, MUTAGENESIS OF 295-LEU--GLU-299.
  20. "A SCARECROW-RETINOBLASTOMA protein network controls protective quiescence in the Arabidopsis root stem cell organizer."
    Cruz-Ramirez A., Diaz-Trivino S., Wachsman G., Du Y., Arteaga-Vazquez M., Zhang H., Benjamins R., Blilou I., Neef A.B., Chandler V., Scheres B.
    PLoS Biol. 11:E1001724-E1001724(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH RBR1, MUTAGENESIS OF 295-LEU--GLU-299.

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: June 24, 2015
This is version 90 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.