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.20G005800.1.p
Common NameGLYMA_20G005800, LOC102663407
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: 550aa    MW: 60179.9 Da    PI: 9.5152
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.20G005800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.32.8e-0579101123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          + C+ C+k F r  nL+ H r H
  Glyma.20G005800.1.p  79 FICEVCNKGFQREQNLQLHRRGH 101
                          89*******************88 PP

2zf-C2H212.60.00041155177123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k +  +s+ k H +t+
  Glyma.20G005800.1.p 155 WKCEKCSKKYAVQSDWKAHSKTC 177
                          58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.606.1E-678101IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.18E-778101No hitNo description
PfamPF121712.7E-579101IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.9979101IPR007087Zinc finger, C2H2
SMARTSM003550.005279101IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028081101IPR007087Zinc finger, C2H2
SMARTSM00355130120150IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.2E-5143176IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.18E-7150175No hitNo description
SMARTSM00355140155175IPR015880Zinc 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: 550 aa     Download sequence    Send to blast
MASASSSTPF LGIRQENQSH VTQQQQHQSS TTAASSTTTT SATPTTVPQK KRRNQPGTPY  60
PDAEVIALSP KTLMATNRFI CEVCNKGFQR EQNLQLHRRG HNLPWKLKQK TNKEPKRKVY  120
LCPEPTCVHH DPSRALGDLT GIKKHYSRKH GEKKWKCEKC SKKYAVQSDW KAHSKTCGTR  180
EYRCDCGTLF SRRDSFITHR AFCDALAHDS ARHPSSLNPL GTHHLYGTNH MSLGLSAQLQ  240
NHQAATNSIL SLGSAPKFEH LISPNLHHSP SSFGVQSPPP PPQSSSFFMT DPNQAFQDLQ  300
SQNQGHLFSN KQLHGLMQLP DLQGTTNINS TTSASSVSGS ANNTNLFNLS FFPNTNASGS  360
IINDQFSNMT GVTNNNQGTA TLYSTNSPVN SNQVGLSSLF GNSSVQQDNM SPHMSATALL  420
QKAAQMGSTT TTNELGMRSS MEDDEHSNHL RGLMNSFVNG NNLGQFHNVV EEPKKMPQNN  480
NLGLCFGGSD KLTLDFLGVG GMVRNMNNGG GFSQREQQQQ QHSMGITMSP LDPKLESAKA  540
NQHYGTSTL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-34151218370Zinc finger protein JACKDAW
5b3h_F1e-34151218370Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.134490.0cotyledon| leaf| pod
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305|PubMed:22898356}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269|PubMed:24821766}.
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:0000305|PubMed:19726569}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.20G005800.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1604541e-165AC160454.31 Glycine max cultivar Williams 82 clone gmw1-15k6, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006605451.10.0protein indeterminate-domain 5, chloroplastic
RefseqXP_006605452.10.0protein indeterminate-domain 5, chloroplastic
RefseqXP_028222360.10.0protein indeterminate-domain 5, chloroplastic-like
RefseqXP_028222361.10.0protein indeterminate-domain 5, chloroplastic-like
SwissprotQ8GYC11e-133IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
SwissprotQ9ZUL31e-132IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A0B2NUV50.0A0A0B2NUV5_GLYSO; Protein indeterminate-domain 4, chloroplastic isoform B
TrEMBLI1NCZ90.0I1NCZ9_SOYBN; Uncharacterized protein
STRINGGLYMA20G00840.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF15363397
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.11e-109indeterminate(ID)-domain 4
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]