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Q9SZF7 (SHR_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 81. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Protein SHORT-ROOT

Short name=AtSHR
Alternative name(s):
GRAS family protein 26
Short name=AtGRAS-26
Protein SHOOT GRAVITROPISM 7
Gene names
Name:SHR
Synonyms:SGR7
Ordered Locus Names:At4g37650
ORF Names:F19F18.140
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length531 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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 both cell division and cell specification. Regulates the radial organization of the shoot axial organs and is required for normal shoot gravitropism. Directly controls the transcription of SCR, and when associated with SCR, of MGP, RLK, TRI, NUC and SCL3. Ref.1 Ref.6 Ref.8 Ref.9 Ref.12 Ref.13

Subunit structure

Interacts with SCR, SCL23, JKD and MGP. Ref.12 Ref.13 Ref.14 Ref.15

Subcellular location

Cytoplasm. Nucleus. Note: Cytoplasm and nucleus in the stele. Restricted to the nucleus in adjacent cells. Ref.7 Ref.11

Tissue specificity

Expressed in the stele and the quiescent center. Not detected in the ground tissue cell lineage. The SHR protein moves from the stele to a single layer of adjacent cells, where it enters the nucleus. Ref.1 Ref.7 Ref.9 Ref.10

Developmental stage

Expressed in the procambium during embryogenesis. Ref.1

Miscellaneous

Moves from the stele into the adjacent cell layer where it locates in the nucleus to controls SCR transcription and endodermis specification.

Sequence similarities

Belongs to the GRAS family.

Binary interactions

With

Entry

#Exp.

IntAct

Notes

SCRQ9M38411EBI-1250472,EBI-1250484

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 531531Protein SHORT-ROOT
PRO_0000329423

Regions

Motif256 – 2605VHIID
Compositional bias11 – 155Poly-Gln
Compositional bias29 – 346Poly-Thr
Compositional bias65 – 695Poly-Ser
Compositional bias70 – 767His-rich
Compositional bias104 – 1107Poly-Ala

Experimental info

Mutagenesis2891T → I or E: Loss of both export from the stele and activity. Ref.11
Sequence conflict2331P → S in AAL69513. Ref.4

Sequences

Sequence LengthMass (Da)Tools
Q9SZF7 [UniParc].

Last modified May 1, 2000. Version 1.
Checksum: F43EEC5F7AA0CA1C

FASTA53159,462
        10         20         30         40         50         60 
MDTLFRLVSL QQQQQSDSII TNQSSLSRTS TTTTGSPQTA YHYNFPQNDV VEECFNFFMD 

        70         80         90        100        110        120 
EEDLSSSSSH HNHHNHNNPN TYYSPFTTPT QYHPATSSTP SSTAAAAALA SPYSSSGHHN 

       130        140        150        160        170        180 
DPSAFSIPQT PPSFDFSANA KWADSVLLEA ARAFSDKDTA RAQQILWTLN ELSSPYGDTE 

       190        200        210        220        230        240 
QKLASYFLQA LFNRMTGSGE RCYRTMVTAA ATEKTCSFES TRKTVLKFQE VSPWATFGHV 

       250        260        270        280        290        300 
AANGAILEAV DGEAKIHIVD ISSTFCTQWP TLLEALATRS DDTPHLRLTT VVVANKFVND 

       310        320        330        340        350        360 
QTASHRMMKE IGNRMEKFAR LMGVPFKFNI IHHVGDLSEF DLNELDVKPD EVLAINCVGA 

       370        380        390        400        410        420 
MHGIASRGSP RDAVISSFRR LRPRIVTVVE EEADLVGEEE GGFDDEFLRG FGECLRWFRV 

       430        440        450        460        470        480 
CFESWEESFP RTSNERLMLE RAAGRAIVDL VACEPSDSTE RRETARKWSR RMRNSGFGAV 

       490        500        510        520        530 
GYSDEVADDV RALLRRYKEG VWSMVQCPDA AGIFLCWRDQ PVVWASAWRP T 

« Hide

References

« Hide 'large scale' references
[1]"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: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
[2]"Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana."
Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B. expand/collapse author list , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R.
Nature 402:769-777(1999) [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]"Arabidopsis ORF clones."
De Los Reyes C., Quan R., Chen H., Bautista V.R., Kim C.J., Ecker J.R.
Submitted (JUN-2008) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Columbia.
[5]"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. expand/collapse author list , 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] OF 54-531.
Strain: cv. Columbia.
[6]"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.
[7]"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: TISSUE SPECIFICITY, SUBCELLULAR LOCATION, TRANSLOCATION.
[8]"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.
[9]"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, TISSUE SPECIFICITY.
[10]"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: TISSUE SPECIFICITY, TRANSLOCATION.
[11]"Mechanisms regulating SHORT-ROOT intercellular movement."
Gallagher K.L., Paquette A.J., Nakajima K., Benfey P.N.
Curr. Biol. 14:1847-1851(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION, MUTAGENESIS OF THR-289.
[12]"Whole-genome analysis of the SHORT-ROOT developmental pathway in Arabidopsis."
Levesque M.P., Vernoux T., Busch W., Cui H., Wang J.Y., Blilou I., Hassan H., Nakajima K., Matsumoto N., Lohmann J.U., Scheres B., Benfey P.N.
PLoS Biol. 4:739-752(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INTERACTION WITH SCR.
[13]"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 SCR.
[14]"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 JKD AND MGP.
[15]"Large-scale analysis of the GRAS gene family in Arabidopsis thaliana."
Lee M.-H., Kim B., Song S.-K., Heo J.-O., Yu N.-I., Lee S.A., Kim M., Kim D.G., Sohn S.O., Lim C.E., Chang K.S., Lee M.M., Lim J.
Plant Mol. Biol. 67:659-670(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH SCR AND SCL23.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF233752 Genomic DNA. Translation: AAF75234.1.
AL035605 Genomic DNA. Translation: CAB38304.1.
AL161591 Genomic DNA. Translation: CAB80430.1.
CP002687 Genomic DNA. Translation: AEE86820.1.
BT033026 mRNA. Translation: ACE62894.1.
AY074547 mRNA. Translation: AAL69513.1.
PIRT04722.
RefSeqNP_195480.1. NM_119928.2.
UniGeneAt.2816.
At.71893.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid15200. 1 interaction.
IntActQ9SZF7. 6 interactions.

Proteomic databases

PaxDbQ9SZF7.
PRIDEQ9SZF7.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT4G37650.1; AT4G37650.1; AT4G37650.
GeneID829919.
KEGGath:AT4G37650.

Organism-specific databases

GeneFarm4260. 427.
TAIRAT4G37650.

Phylogenomic databases

eggNOGNOG301144.
HOGENOMHOG000078767.
InParanoidQ9SZF7.
OMACPASESM.
PhylomeDBQ9SZF7.
ProtClustDBCLSN2685807.

Gene expression databases

GenevestigatorQ9SZF7.

Family and domain databases

InterProIPR005202. TF_GRAS.
[Graphical view]
PfamPF03514. GRAS. 1 hit.
[Graphical view]
PROSITEPS50985. GRAS. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameSHR_ARATH
AccessionPrimary (citable) accession number: Q9SZF7
Secondary accession number(s): B3DNN8, Q8RU28
Entry history
Integrated into UniProtKB/Swiss-Prot: April 8, 2008
Last sequence update: May 1, 2000
Last modified: February 19, 2014
This is version 81 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names