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_09640.1_g00001.1
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: 456aa    MW: 51278.4 Da    PI: 9.3667
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_09640.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.82.1e-066587123
                             EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                             + C++C+k F+r  nL+ H r H
  Rsa1.0_09640.1_g00001.1 65 FICEICNKGFKRDQNLQLHRRGH 87
                             89*******************88 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.605.3E-66487IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.86E-76487No hitNo description
PROSITE profilePS5015710.8666587IPR007087Zinc finger, C2H2
SMARTSM003550.0116587IPR015880Zinc finger, C2H2-like
PfamPF121711.7E-56587IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS0002806787IPR007087Zinc finger, C2H2
SMARTSM0035593107137IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.9E-4130163IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.86E-7137162No hitNo description
SMARTSM00355180142162IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 456 aa     Download sequence    Send to blast
MMIPDDHHHL SFPSYVLHQE PITANPSPNP NPTTSNSNKR KRNLPDPDAE VIALSPNSLM  60
TTNRFICEIC NKGFKRDQNL QLHRRGHNLP WKLKQRTDKE QVKKKVYVCP EKTCVHHDPS  120
RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVMSDWKAH SKICGTREYR CDCGTLFSRK  180
DSFITHRAFC DALAEESARF ASVPPAAVAC LNNASDAEVN LGNIKPNHQQ RLPDRTSSQH  240
DQHGFNINHD NINGFTRQSS TNQLPLAANV FASSSSSSLS PSPHSASALL QNLWQLQGRQ  300
SYQWLLNENN NNIIHSGMPN NQEDYDTKKG ISLGSNLFSS EARTNYNQNG GQEMGSMSAT  360
ALLQRATQMG SKRSSSSSNN GMAFGLMTSS IFNNKEMENN IKTKEVDERG FTRDFLGVAS  420
QNRPRPILMV NHNLPTTNDG TPTTDMNHSM LYFLYE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-36138203368Zinc finger protein JACKDAW
5b3h_F5e-36138203368Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_09640.1_g00001.1
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018433176.10.0PREDICTED: protein indeterminate-domain 9 isoform X2
SwissprotQ944L30.0IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLA0A397YYN80.0A0A397YYN8_BRACM; Uncharacterized protein
STRINGBra038293.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G45260.10.0C2H2-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]