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 Vradi0086s00500.1
Organism
Vigna radiata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family C2H2
Protein Properties Length: 376aa    MW: 41830.4 Da    PI: 9.4402
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi0086s00500.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.16.7e-056082123
                       EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                       ++C++C k F r  nL+ H r H
  Vradi0086s00500.1 60 FVCEICLKGFQRDQNLQLHRRGH 82
                       89*******************88 PP
2zf-C2H213.90.00016136158123
                        EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                        +kC++C+k++  +s+ k H +t+
  Vradi0086s00500.1 136 WKCEKCSKRYAVQSDWKAHSKTC 158
                        58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.3E-45982IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.82E-55982No hitNo description
PROSITE profilePS5015710.3056082IPR007087Zinc finger, C2H2
PROSITE patternPS0002806282IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.1E-4124157IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.82E-5131156No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 376 aa     Download sequence    Send to blast
MLQKMDDGEI SNAFPLQNPS TAASNQPPLL KRKRNLPGNP DPEAEVIALS PKTLMATNRF  60
VCEICLKGFQ RDQNLQLHRR GHNLPWKLKQ RSSKEVRKRV YVCPEKTCVH HHPSRALGDL  120
TGIKKHFCRK HGEKKWKCEK CSKRYAVQSD WKAHSKTCGT REYKCDCGTI FSRRDSFITH  180
RAFCDALAEE TARVNAATNI SNYSIMQNPL GSNMATHFSS FYKPNSCTEE PVVPVNNIVK  240
DNPNLQLISV PSLYSSQHQS HQTTSANMSA TALLQKAAQI GTTSSDPSLF LGSIGLKCNS  300
PGQDGNKFCG MYGSSSVLTG HEGENNYSGD LSQMPPTKRR HVQNEESVWG QTRDFLGVGG  360
ANHLPPFINQ RMDLI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C6e-37132199370Zinc finger protein JACKDAW
5b3h_F6e-37132199370Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). 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). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapVradi0086s00500.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150400.0AP015040.1 Vigna angularis var. angularis DNA, chromosome 7, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024633339.10.0zinc finger protein MAGPIE
SwissprotQ9ZWA61e-123IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A2K3PSA10.0A0A2K3PSA1_TRIPR; Zinc finger protein MAGPIE-like
STRINGVIT_12s0028g03030.t011e-173(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF46262951
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-126C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]