Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q700D2 (JKD_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 94. 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:
Zinc finger protein JACKDAW
Alternative name(s):
ID1-like zinc finger protein 3
Gene names
Name:JKD
Synonyms:IDZ3
Ordered Locus Names:At5g03150
ORF Names:F15A17.180
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length503 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Probable transcription factor that regulates tissue boundaries and asymmetric cell division by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action. Required for radial patterning and stem cell maintenance. Counteracted by 'MAGPIE' (MGP). Ref.7

Subunit structure

Interacts with SHR, SCR, MGP and itself. Ref.7

Subcellular location

Nucleus Ref.7.

Tissue specificity

Expressed in the quiescent center, the ground tissue stem cells and to a lesser extent in mature cortex and endodermis cells. Ref.7

Developmental stage

Start to accumulate during the 16- to 32-cell stage of embryogenesis. Ref.7

Miscellaneous

Early initiation of expression in ground tissue is SHR- and SCR-independent but later maintenance becomes dependent on both.

Sequence similarities

Contains 2 C2H2-type zinc fingers.

Sequence caution

The sequence BAB08375.1 differs from that shown. Reason: Erroneous gene model prediction.

The sequence CAB86082.1 differs from that shown. Reason: Erroneous gene model prediction.

Binary interactions

With

Entry

#Exp.

IntAct

Notes

MGPQ9ZWA63EBI-1568562,EBI-1568600

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 503503Zinc finger protein JACKDAW
PRO_0000337840

Regions

Zinc finger82 – 10423C2H2-type 1
Zinc finger159 – 18224C2H2-type 2; degenerate
Compositional bias222 – 24524Asn-rich
Compositional bias300 – 415116Ser-rich

Experimental info

Sequence conflict4351H → R in BAF00785. Ref.6

Sequences

Sequence LengthMass (Da)Tools
Q700D2 [UniParc].

Last modified July 5, 2004. Version 1.
Checksum: 49F387E021AB0A97

FASTA50355,201
        10         20         30         40         50         60 
MQMIPGDPFS ISSSMGGFVH QETHLHHLQQ QIPDLNPNSN PNPNAKPNSS SAKKKRNQPG 

        70         80         90        100        110        120 
TPDPDADVIA LSPTTLMATN RFVCEICNKG FQRDQNLQLH RRGHNLPWKL KQRSKQEVIK 

       130        140        150        160        170        180 
KKVYICPIKT CVHHDASRAL GDLTGIKKHY SRKHGEKKWK CEKCSKKYAV QSDWKAHAKT 

       190        200        210        220        230        240 
CGTREYKCDC GTLFSRKDSF ITHRAFCDAL TEEGARMSSL SNNNPVISTT NLNFGNESNV 

       250        260        270        280        290        300 
MNNPNLPHGF VHRGVHHPDI NAAISQFGLG FGHDLSAMHA QGLSEMVQMA STGNHHLFPS 

       310        320        330        340        350        360 
SSSSLPDFSG HHQFQIPMTS TNPSLTLSSS STSQQTSASL QHQTLKDSSF SPLFSSSSEN 

       370        380        390        400        410        420 
KQNKPLSPMS ATALLQKAAQ MGSTRSNSST APSFFAGPTM TSSSATASPP PRSSSPMMIQ 

       430        440        450        460        470        480 
QQLNNFNTNV LRENHNRAPP PLSGVSTSSV DNNPFQSNRS GLNPAQQMGL TRDFLGVSNE 

       490        500 
HHPHQTGRRP FLPQELARFA PLG 

« Hide

References

« Hide 'large scale' references
[1]"Genome-wide ORFeome cloning and analysis of Arabidopsis transcription factor genes."
Gong W., Shen Y.-P., Ma L.-G., Pan Y., Du Y.-L., Wang D.-H., Yang J.-Y., Hu L.-D., Liu X.-F., Dong C.-X., Ma L., Chen Y.-H., Yang X.-Y., Gao Y., Zhu D., Tan X., Mu J.-Y., Zhang D.-B. expand/collapse author list , Liu Y.-L., Dinesh-Kumar S.P., Li Y., Wang X.-P., Gu H.-Y., Qu L.-J., Bai S.-N., Lu Y.-T., Li J.-Y., Zhao J.-D., Zuo J., Huang H., Deng X.-W., Zhu Y.-X.
Plant Physiol. 135:773-782(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]"INDETERMINATE1-like genes in Arabidopsis."
Dewald M., Fritz J., Merkle T.
Submitted (JAN-2004) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[3]"Structural analysis of Arabidopsis thaliana chromosome 5. I. Sequence features of the 1.6 Mb regions covered by twenty physically assigned P1 clones."
Sato S., Kotani H., Nakamura Y., Kaneko T., Asamizu E., Fukami M., Miyajima N., Tabata S.
DNA Res. 4:215-230(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[4]"Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana."
Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E., Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K. expand/collapse author list , Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L., O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D., Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M., Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L., Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B., Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P., Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M., Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A., Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I., Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T., Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A., McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U., Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M., Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G., Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W., Bevan M., Fransz P.F.
Nature 408:823-826(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[5]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[6]"Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K. expand/collapse author list , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 7-503.
Strain: cv. Columbia.
[7]"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: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, SUBCELLULAR LOCATION, INTERACTION WITH SHR; SCR; MGP AND ITSELF.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AY568665 mRNA. Translation: AAS79555.1.
AJ630493 mRNA. Translation: CAG25866.1.
AJ621494 mRNA. Translation: CAF18563.1.
AB005240 Genomic DNA. Translation: BAB08375.1. Sequence problems.
AL163002 Genomic DNA. Translation: CAB86082.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED90561.1.
AK228895 mRNA. Translation: BAF00785.1.
PIRT48336.
RefSeqNP_195935.2. NM_120393.5.
UniGeneAt.1592.

3D structure databases

ProteinModelPortalQ700D2.
SMRQ700D2. Positions 72-213.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActQ700D2. 3 interactions.

Proteomic databases

PaxDbQ700D2.
PRIDEQ700D2.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT5G03150.1; AT5G03150.1; AT5G03150.
GeneID831919.
KEGGath:AT5G03150.

Organism-specific databases

TAIRAT5G03150.

Phylogenomic databases

eggNOGNOG331143.
HOGENOMHOG000237608.
InParanoidQ700D2.
OMAMASTGNH.
PhylomeDBQ700D2.

Gene expression databases

GenevestigatorQ700D2.

Family and domain databases

Gene3D3.30.160.60. 2 hits.
InterProIPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamPF00096. zf-C2H2. 1 hit.
[Graphical view]
SMARTSM00355. ZnF_C2H2. 3 hits.
[Graphical view]
PROSITEPS00028. ZINC_FINGER_C2H2_1. 1 hit.
PS50157. ZINC_FINGER_C2H2_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameJKD_ARATH
AccessionPrimary (citable) accession number: Q700D2
Secondary accession number(s): Q0WQ14, Q9FYN0, Q9LYX0
Entry history
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: July 5, 2004
Last modified: June 11, 2014
This is version 94 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