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Q700D2

- JKD_ARATH

UniProt

Q700D2 - JKD_ARATH

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Protein
Zinc finger protein JACKDAW
Gene
JKD, IDZ3, At5g03150, F15A17.180
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

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).1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri82 – 10423C2H2-type 1
Add
BLAST
Zinc fingeri159 – 18224C2H2-type 2; degenerate
Add
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. metal ion binding Source: UniProtKB-KW
  3. protein binding Source: IntAct
  4. protein homodimerization activity Source: TAIR
  5. sequence-specific DNA binding transcription factor activity Source: TAIR

GO - Biological processi

  1. regulation of cell division Source: TAIR
  2. regulation of epidermal cell differentiation Source: TAIR
  3. regulation of meristem growth Source: TAIR
  4. regulation of transcription, DNA-templated Source: TAIR
  5. root development Source: TAIR
  6. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Zinc finger protein JACKDAW
Alternative name(s):
ID1-like zinc finger protein 3
Gene namesi
Name:JKD
Synonyms:IDZ3
Ordered Locus Names:At5g03150
ORF Names:F15A17.180
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 5

Organism-specific databases

TAIRiAT5G03150.

Subcellular locationi

Nucleus 1 Publication

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 503503Zinc finger protein JACKDAW
PRO_0000337840Add
BLAST

Proteomic databases

PaxDbiQ700D2.
PRIDEiQ700D2.

Expressioni

Tissue specificityi

Expressed in the quiescent center, the ground tissue stem cells and to a lesser extent in mature cortex and endodermis cells.1 Publication

Developmental stagei

Start to accumulate during the 16- to 32-cell stage of embryogenesis.1 Publication

Gene expression databases

GenevestigatoriQ700D2.

Interactioni

Subunit structurei

Interacts with SHR, SCR, MGP and itself.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
MGPQ9ZWA63EBI-1568562,EBI-1568600

Protein-protein interaction databases

IntActiQ700D2. 3 interactions.

Structurei

3D structure databases

ProteinModelPortaliQ700D2.
SMRiQ700D2. Positions 72-213.

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi222 – 24524Asn-rich
Add
BLAST
Compositional biasi300 – 415116Ser-rich
Add
BLAST

Sequence similaritiesi

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiNOG331143.
HOGENOMiHOG000237608.
InParanoidiQ700D2.
OMAiMASTGNH.
PhylomeDBiQ700D2.

Family and domain databases

Gene3Di3.30.160.60. 2 hits.
InterProiIPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF00096. zf-C2H2. 1 hit.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 3 hits.
[Graphical view]
PROSITEiPS00028. ZINC_FINGER_C2H2_1. 1 hit.
PS50157. ZINC_FINGER_C2H2_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q700D2-1 [UniParc]FASTAAdd to Basket

« Hide

MQMIPGDPFS ISSSMGGFVH QETHLHHLQQ QIPDLNPNSN PNPNAKPNSS    50
SAKKKRNQPG TPDPDADVIA LSPTTLMATN RFVCEICNKG FQRDQNLQLH 100
RRGHNLPWKL KQRSKQEVIK KKVYICPIKT CVHHDASRAL GDLTGIKKHY 150
SRKHGEKKWK CEKCSKKYAV QSDWKAHAKT CGTREYKCDC GTLFSRKDSF 200
ITHRAFCDAL TEEGARMSSL SNNNPVISTT NLNFGNESNV MNNPNLPHGF 250
VHRGVHHPDI NAAISQFGLG FGHDLSAMHA QGLSEMVQMA STGNHHLFPS 300
SSSSLPDFSG HHQFQIPMTS TNPSLTLSSS STSQQTSASL QHQTLKDSSF 350
SPLFSSSSEN KQNKPLSPMS ATALLQKAAQ MGSTRSNSST APSFFAGPTM 400
TSSSATASPP PRSSSPMMIQ QQLNNFNTNV LRENHNRAPP PLSGVSTSSV 450
DNNPFQSNRS GLNPAQQMGL TRDFLGVSNE HHPHQTGRRP FLPQELARFA 500
PLG 503
Length:503
Mass (Da):55,201
Last modified:July 5, 2004 - v1
Checksum:i49F387E021AB0A97
GO

Sequence cautioni

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.

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti435 – 4351H → R in BAF00785. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
PIRiT48336.
RefSeqiNP_195935.2. NM_120393.5.
UniGeneiAt.1592.

Genome annotation databases

EnsemblPlantsiAT5G03150.1; AT5G03150.1; AT5G03150.
GeneIDi831919.
KEGGiath:AT5G03150.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
PIRi T48336.
RefSeqi NP_195935.2. NM_120393.5.
UniGenei At.1592.

3D structure databases

ProteinModelPortali Q700D2.
SMRi Q700D2. Positions 72-213.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi Q700D2. 3 interactions.

Proteomic databases

PaxDbi Q700D2.
PRIDEi Q700D2.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT5G03150.1 ; AT5G03150.1 ; AT5G03150 .
GeneIDi 831919.
KEGGi ath:AT5G03150.

Organism-specific databases

TAIRi AT5G03150.

Phylogenomic databases

eggNOGi NOG331143.
HOGENOMi HOG000237608.
InParanoidi Q700D2.
OMAi MASTGNH.
PhylomeDBi Q700D2.

Gene expression databases

Genevestigatori Q700D2.

Family and domain databases

Gene3Di 3.30.160.60. 2 hits.
InterProi IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view ]
Pfami PF00096. zf-C2H2. 1 hit.
[Graphical view ]
SMARTi SM00355. ZnF_C2H2. 3 hits.
[Graphical view ]
PROSITEi PS00028. ZINC_FINGER_C2H2_1. 1 hit.
PS50157. ZINC_FINGER_C2H2_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. 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.
    , 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.
    , 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.

Entry informationi

Entry nameiJKD_ARATH
AccessioniPrimary (citable) accession number: Q700D2
Secondary accession number(s): Q0WQ14, Q9FYN0, Q9LYX0
Entry historyi
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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

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

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

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