PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Araip.GI9KG
Organism
Arachis ipaensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Dalbergieae; Arachis
Family C2H2
Protein Properties Length: 487aa    MW: 53517.8 Da    PI: 9.684
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araip.GI9KGgenomeNCGR_PGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.22.9e-057597123
                 EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                 + C++C+k F r  nL+ H r H
  Araip.GI9KG 75 FICEICNKGFQRDQNLQLHRRGH 97
                 89*******************88 PP
2zf-C2H212.80.00036151173123
                  EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                  +kC++C+k +  +s+ k H +t+
  Araip.GI9KG 151 WKCEKCSKKYAVQSDWKAHSKTC 173
                  58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.89E-77497No hitNo description
Gene3DG3DSA:3.30.160.601.3E-57497IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.8457597IPR007087Zinc finger, C2H2
SMARTSM003550.0227597IPR015880Zinc finger, C2H2-like
PfamPF121715.8E-57597IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS0002807797IPR007087Zinc finger, C2H2
SMARTSM00355120116146IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-4139172IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.89E-7146171No hitNo description
SMARTSM00355140151171IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010075Biological Processregulation of meristem growth
GO:0045604Biological Processregulation of epidermal cell differentiation
GO:0048364Biological Processroot development
GO:0051302Biological Processregulation of cell division
GO:0003676Molecular Functionnucleic acid binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 487 aa     Download sequence    Send to blast
MLPGDPFSLS TSLAAAGFTQ DQNLNSIANP NPKPKPNSNP PPATNKKKRN LPGTPDPDAE  60
VIALSPKTLM ATNRFICEIC NKGFQRDQNL QLHRRGHNLP WKLRQRTNKE VKKKVYICPE  120
KSCVHHEPAR ALGDLTGIKK HFSRKHGEKK WKCEKCSKKY AVQSDWKAHS KTCGTREYKC  180
DCGTLFSRKD SFITHRAFCD ALAEESARLN SVSTSTNLSF KSEEATTQQG VLNNNVGGGV  240
GFRFDFNNEM GMVGAEQEQI MRPNLLLWLN QQHGNNRHQI NQFDMPSSSS SHHQVMHMPM  300
PMLPNDFGML APNSSKVSEE GGGSDHNSGL ASMYSENQSK QSSKAPSPST YSPMSATALL  360
QKAAQIGSTN NPSTFSASFG LMTSSSSIQT TTASNANQNQ QGRRIDQSIK QPDQCFSALM  420
HSSQSFDDQF LSNHHPGSSS AAGHNNNFTR DFLGMSRGPF LPQELAKFAS VGSSMGLTQF  480
TTSATHQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C8e-39147213369Zinc finger protein JACKDAW
5b3h_F8e-39147213369Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that, together with BIB, 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, PubMed:25829440). Binds DNA via its zinc fingers (PubMed:28211915, PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). 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). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:20356954, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:28211915}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00485DAPTransfer from AT5G03150Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraip.GI9KG
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by SCR and SHR. {ECO:0000269|PubMed:21935722}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016207931.10.0zinc finger protein JACKDAW
RefseqXP_020960057.10.0zinc finger protein JACKDAW
SwissprotQ700D21e-125IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBLA0A444YND10.0A0A444YND1_ARAHY; Uncharacterized protein
STRINGGLYMA03G33700.11e-176(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF18134275
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03150.11e-101C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  2. Hirano Y, et al.
    Structure of the SHR-SCR heterodimer bound to the BIRD/IDD transcriptional factor JKD.
    Nat Plants, 2017. 3: p. 17010
    [PMID:28211915]
  3. Kobayashi A,Miura S,Kozaki A
    INDETERMINATE DOMAIN PROTEIN binding sequences in the 5'-untranslated region and promoter of the SCARECROW gene play crucial and distinct roles in regulating SCARECROW expression in roots and leaves.
    Plant Mol. Biol., 2017. 94(1-2): p. 1-13
    [PMID:28324206]
  4. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]
  5. Bustillo-Avendaño E, et al.
    Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis.
    Plant Physiol., 2018. 176(2): p. 1709-1727
    [PMID:29233938]