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 Glyma.10G153200.1.p
Common NameGLYMA_10G153200, LOC100813556
Organism
Glycine max
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: 535aa    MW: 57532.9 Da    PI: 8.8308
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.10G153200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.13.3e-0592114123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          + C++C+k F r  nL+ H r H
  Glyma.10G153200.1.p  92 FICEICNKGFQRDQNLQLHRRGH 114
                          89*******************88 PP
2zf-C2H211.10.0012168190123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC +C+k +  +s+ k H + +
  Glyma.10G153200.1.p 168 WKCDKCSKKYAVQSDWKAHSKIC 190
                          58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576676.29E-791114No hitNo description
Gene3DG3DSA:3.30.160.601.4E-591114IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121716.5E-592114IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.84592114IPR007087Zinc finger, C2H2
SMARTSM003550.02292114IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028094114IPR007087Zinc finger, C2H2
SMARTSM00355220133163IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.9E-4156189IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.29E-7163188No hitNo description
SMARTSM00355150168188IPR015880Zinc 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: 535 aa     Download sequence    Send to blast
MSNITSCDSG SFSTENTRED AAVKQQQSEM LGQFHSPHSH TSTTTTNNSN GSNTNSQPPA  60
PVKKKRSLPG NPDPSAEVIA LSPTTLMATN RFICEICNKG FQRDQNLQLH RRGHNLPWKL  120
KQRTSTEIRK RVYVCPEPSC VHHNPARALG DLTGIKKHFC RKHGEKKWKC DKCSKKYAVQ  180
SDWKAHSKIC GTREYKCDCG TIFSRRDSFI THRAFCDALA EENNKANEGQ LPKIGPNLQC  240
QQIPNLVSSL PINTNSIVPN PAQMGGTTSE FNHADHKHPL SLPHELMPMP AQKPFNNNMA  300
AGTVFTRSLS STSSPSLQLS SNMFDENGLH LAAGSPHMSA TALLQKAAQM GATLTEKSTF  360
ATNMAPPSFG VLQQHHHHQQ PNGQPFTNQY MHSGHHHQQQ EVNISTQYSF GSANGMGGGS  420
VGMNGVDMFN AILDQSKALS KIIEQNNNRS SSGGTTNGGS SSAINNVAGS KGSGDVMTLD  480
FLGIGGGGSG SGGGAHGNFY GGAQQGETGA PDEVWRNWSS KNAGFESFST TSSI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-33164222361Zinc finger protein JACKDAW
5b3h_F1e-33164222361Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.330880.0cotyledon| leaf| root| stem
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}.
UniprotTISSUE SPECIFICITY: Observed in vegetative tissues. Mainly expressed in hypocotyls, petioles, shoot apices, root tips, and trichomes, and, at low levels, in leaves, stems and flowers. {ECO:0000269|PubMed:25035403}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269|PubMed:25035403}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.10G153200.1.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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2359140.0AC235914.2 Glycine max clone GM_WBc0225O17, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003535336.10.0protein indeterminate-domain 2
RefseqXP_028184221.10.0zinc finger protein GAI-ASSOCIATED FACTOR 1-like
SwissprotQ9SCQ61e-114IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
SwissprotQ9ZWA61e-114IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A445IMU10.0A0A445IMU1_GLYSO; Protein indeterminate-domain 2
TrEMBLI1LBB30.0I1LBB3_SOYBN; Uncharacterized protein
STRINGGLYMA10G29390.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF21923085
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-101C2H2 family protein
Publications ? help Back to Top
  1. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  2. 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]
  3. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  4. Khare D, et al.
    Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana.
    New Phytol., 2017. 213(3): p. 1257-1273
    [PMID:27768815]