PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_01554.1_g00002.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C2H2
Protein Properties Length: 447aa    MW: 50060.5 Da    PI: 9.3981
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01554.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.51.1e-057799123
                             EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                             y C++C++ F r  nL+ H r+H
  Rsa1.0_01554.1_g00002.1 77 YICEICNQGFQRDQNLQMHRRRH 99
                             89********************9 PP
2zf-C2H216.13.3e-05155177123
                              EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                              ++C++C+k +  +s++k H++t+
  Rsa1.0_01554.1_g00002.1 155 WVCEKCSKGYAVQSDYKAHLKTC 177
                              58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.52E-57699No hitNo description
Gene3DG3DSA:3.30.160.601.3E-57699IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00657799IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.8667799IPR007087Zinc finger, C2H2
PROSITE patternPS0002807999IPR007087Zinc finger, C2H2
SMARTSM00355100119149IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.7E-4146176IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.52E-5150175No hitNo description
SMARTSM0035560155182IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 447 aa     Download sequence    Send to blast
MKTDQGAVVM LNDAASNKNT TNTRCVVFSS SEPFLSSSEN GVTTTKTSTQ KRKRRPADPD  60
AEVVSLSPRT LLESDRYICE ICNQGFQRDQ NLQMHRRRHK VPWKLLKRDS NIEVKKRVYV  120
CPEPTCLHHD PFHALGDLVG IKKHFRRKHS NHKQWVCEKC SKGYAVQSDY KAHLKTCGTR  180
GHSCDCGRVF SRVESFIEHQ DNCSVRNVRQ EPPPPPQTAV IVTACSSRTA STASTPSTET  240
NYGGAAVVAT PLPLEGRPIH IRNSSLTPLA LTNSSNLNLE LQLLPLTPNI NPNQQNQQQQ  300
VKEPSLHHHH HSHDATNLNL SIAPSSSYHH YNNFDRIKEI IASEQIMNVA MKEKAYAEEA  360
KREAKRQREI AENEFANAKK TRQQAQTELK RAKLLKEQSM KKISSTIMQV TCQTCKGQFE  420
VVPAAATEET SLVVSYMSST NTDGGGS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-18153205557Zinc finger protein JACKDAW
5b3h_F5e-18153205557Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:16813575, ECO:0000269|PubMed:18259878, ECO:0000269|PubMed:24039602, ECO:0000269|PubMed:9210330}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01554.1_g00002.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018481246.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like isoform X1
SwissprotF4IPE30.0IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A3P5YLV40.0A0A3P5YLV4_BRACM; Uncharacterized protein
STRINGBra024841.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM69328131
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.10.0C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Kim JY,Ryu JY,Baek K,Park CM
    High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis.
    New Phytol., 2016. 209(1): p. 265-79
    [PMID:26256266]
  3. Ryu JY,Kim JY,Park CM
    Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis.
    Plant Signal Behav, 2015. 10(11): p. e1093715
    [PMID:26452406]
  4. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]
  5. Shi H, et al.
    Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17.
    J. Pineal Res., 2018. 65(2): p. e12494
    [PMID:29607541]