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Protein

Zinc finger protein JACKDAW

Gene

JKD

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

Functioni

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(PubMed:17785527). Required for radial patterning and stem cell maintenance(PubMed:17785527). Counteracted by 'MAGPIE' (MGP)(PubMed:17785527). Binds to the SCR and MGP promoter sequences (PubMed:21935722). Controls position-dependent signals that regulate epidermal-cell-type patterning (PubMed:20356954).3 Publications

Miscellaneous

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

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri82 – 104C2H2-type 1PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri124 – 154C2H2-type 2CuratedAdd BLAST31
Zinc fingeri159 – 183CCHC-type 1; atypicalCuratedAdd BLAST25
Zinc fingeri186 – 209CCHC-type 2; atypicalCuratedAdd BLAST24

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • DNA binding transcription factor activity Source: TAIR
  • metal ion binding Source: UniProtKB-KW

GO - Biological processi

  • asymmetric cell division Source: TAIR
  • regulation of cell division Source: TAIR
  • regulation of epidermal cell differentiation Source: TAIR
  • regulation of meristem growth Source: TAIR
  • regulation of transcription, DNA-templated Source: TAIR
  • root development Source: TAIR
  • transcription, DNA-templated Source: UniProtKB-KW

Keywordsi

Molecular functionDNA-binding
Biological processTranscription, Transcription regulation
LigandMetal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Zinc finger protein JACKDAW
Alternative name(s):
ID1-like zinc finger protein 31 Publication
Protein indeterminate-domain 101 Publication
Gene namesi
Name:JKD
Synonyms:IDD101 Publication, IDZ31 Publication
Ordered Locus Names:At5g03150
ORF Names:F15A17.180
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

AraportiAT5G03150
TAIRilocus:2143543 AT5G03150

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003378401 – 503Zinc finger protein JACKDAWAdd BLAST503

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei72PhosphoserineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ700D2

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

Inductioni

Not regulated by SCR and SHR.1 Publication

Gene expression databases

ExpressionAtlasiQ700D2 baseline and differential
GenevisibleiQ700D2 AT

Interactioni

Subunit structurei

Interacts with SHR, SCR, MGP and itself (PubMed:17785527). Interacts with SIEL (PubMed:21924907).2 Publications

Binary interactionsi

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

Protein-protein interaction databases

BioGridi17195, 2 interactors
IntActiQ700D2, 3 interactors
STRINGi3702.AT5G03150.1

Structurei

Secondary structure

1503
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi162 – 164Combined sources3
Beta strandi167 – 170Combined sources4
Helixi171 – 180Combined sources10
Beta strandi184 – 187Combined sources4
Beta strandi193 – 195Combined sources3
Helixi197 – 206Combined sources10

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5B3HX-ray2.70C/F155-224[»]
ProteinModelPortaliQ700D2
SMRiQ700D2
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi222 – 245Asn-richAdd BLAST24
Compositional biasi300 – 415Ser-richAdd BLAST116

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri82 – 104C2H2-type 1PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri124 – 154C2H2-type 2CuratedAdd BLAST31
Zinc fingeri159 – 183CCHC-type 1; atypicalCuratedAdd BLAST25
Zinc fingeri186 – 209CCHC-type 2; atypicalCuratedAdd BLAST24

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1721 Eukaryota
COG5048 LUCA
HOGENOMiHOG000237608
InParanoidiQ700D2
OMAiNRNELHQ
OrthoDBiEOG09360842
PhylomeDBiQ700D2

Family and domain databases

InterProiView protein in InterPro
IPR033243 JKD-like
IPR036236 Znf_C2H2_sf
IPR013087 Znf_C2H2_type
PANTHERiPTHR10593:SF42 PTHR10593:SF42, 1 hit
SMARTiView protein in SMART
SM00355 ZnF_C2H2, 3 hits
SUPFAMiSSF57667 SSF57667, 2 hits
PROSITEiView protein in PROSITE
PS00028 ZINC_FINGER_C2H2_1, 1 hit
PS50157 ZINC_FINGER_C2H2_2, 1 hit

Sequencei

Sequence statusi: Complete.

Q700D2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQMIPGDPFS ISSSMGGFVH QETHLHHLQQ QIPDLNPNSN PNPNAKPNSS
60 70 80 90 100
SAKKKRNQPG TPDPDADVIA LSPTTLMATN RFVCEICNKG FQRDQNLQLH
110 120 130 140 150
RRGHNLPWKL KQRSKQEVIK KKVYICPIKT CVHHDASRAL GDLTGIKKHY
160 170 180 190 200
SRKHGEKKWK CEKCSKKYAV QSDWKAHAKT CGTREYKCDC GTLFSRKDSF
210 220 230 240 250
ITHRAFCDAL TEEGARMSSL SNNNPVISTT NLNFGNESNV MNNPNLPHGF
260 270 280 290 300
VHRGVHHPDI NAAISQFGLG FGHDLSAMHA QGLSEMVQMA STGNHHLFPS
310 320 330 340 350
SSSSLPDFSG HHQFQIPMTS TNPSLTLSSS STSQQTSASL QHQTLKDSSF
360 370 380 390 400
SPLFSSSSEN KQNKPLSPMS ATALLQKAAQ MGSTRSNSST APSFFAGPTM
410 420 430 440 450
TSSSATASPP PRSSSPMMIQ QQLNNFNTNV LRENHNRAPP PLSGVSTSSV
460 470 480 490 500
DNNPFQSNRS GLNPAQQMGL TRDFLGVSNE HHPHQTGRRP FLPQELARFA

PLG
Length:503
Mass (Da):55,201
Last modified:July 5, 2004 - v1
Checksum:i49F387E021AB0A97
GO

Sequence cautioni

The sequence BAB08375 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence CAB86082 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti435H → R in BAF00785 (Ref. 6) Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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_120393.6
UniGeneiAt.1592

Genome annotation databases

EnsemblPlantsiAT5G03150.1; AT5G03150.1; AT5G03150
GeneIDi831919
GrameneiAT5G03150.1; AT5G03150.1; AT5G03150
KEGGiath:AT5G03150

Similar proteinsi

Entry informationi

Entry nameiIDD10_ARATH
AccessioniPrimary (citable) accession number: Q700D2
Secondary accession number(s): Q0WQ14, Q9FYN0, Q9LYX0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: July 5, 2004
Last modified: April 25, 2018
This is version 122 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health