PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Glyma.12G118800.1.p
Common NameGLYMA_12G118800
Organism
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; Glycine; Soja
Family C2H2
Protein Properties Length: 472aa    MW: 51622.7 Da    PI: 8.8745
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.12G118800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.69.4e-056888323
                         ETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                         C+ Cgk F r  nL+ H r H
  Glyma.12G118800.1.p 68 CETCGKGFQRDQNLQLHRRGH 88
                         *******************88 PP

2zf-C2H213.50.00022142164123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k++  +s+ k H +t+
  Glyma.12G118800.1.p 142 WKCEKCSKRYAVQSDWKAHSKTC 164
                          58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.03E-66588No hitNo description
Gene3DG3DSA:3.30.160.608.4E-56688IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.5936688IPR007087Zinc finger, C2H2
PROSITE patternPS0002806888IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-4130163IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.03E-6137162No 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: 472 aa     Download sequence    Send to blast
MLRNMDEGEI MTNIAFPQNL TASAASSDHN NPPPSLKRKR NLPGNPDPEA QVIALSPKTL  60
MATNRFLCET CGKGFQRDQN LQLHRRGHNL PWKLKQRTGK EARKRVYVCP EKSCVHHDPS  120
RALGDLTGIK KHFCRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYK CDCGTIFSRR  180
DSFITHRAFC DALAEETARV NAASDINTSL GGNIGYNIMG TSLGPNMATH FPSIFKPISS  240
TDETSNQTSR GLPLWMGQTS SQAQETMVNT NFREIHQLGS ATSSSGTMYG GNSILQYSNL  300
PPSNNYQLSW VFGTKISNSS NNQELTTNTT TTTSLPIGNS SVPSLYCSQH QPQQTCSSAN  360
MSATALLQKA AQIGATSSDP SWLGSLGLKC GNSQGQDGNN NKYSDMYGSS LVLTTLGSEA  420
DNSACELSQM HPHKRRHVLN EESGGGQTRD FLGVGVQNHL PHFINQGVDL I*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-36138207372Zinc finger protein JACKDAW
5b3h_F2e-36138207372Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:25829440}.
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
PlantRegMapGlyma.12G118800.1.p
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
GenBankAC2352960.0AC235296.1 Glycine max strain Williams 82 clone GM_WBb0059O10, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028238076.10.0zinc finger protein NUTCRACKER-like
SwissprotQ9ZWA61e-138IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A445HPD80.0A0A445HPD8_GLYSO; Zinc finger protein MAGPIE
TrEMBLI1LS810.0I1LS81_SOYBN; Uncharacterized protein
STRINGGLYMA12G13810.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF46262951
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-137C2H2 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]