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.20G005900.1.p
Common NameGLYMA_20G005900
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: 349aa    MW: 39097.9 Da    PI: 9.9435
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.20G005900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2171.6e-057193123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         + C+ C+k F r  nL+ H r H
  Glyma.20G005900.1.p 71 FICEVCNKGFQREQNLQLHRRGH 93
                         89*******************88 PP

2zf-C2H212.70.00038147169123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC +C+k +  +s+ k H +t+
  Glyma.20G005900.1.p 147 WKCDKCSKKYAVQSDWKAHSKTC 169
                          58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.26E-77093No hitNo description
Gene3DG3DSA:3.30.160.603.5E-67093IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.997193IPR007087Zinc finger, C2H2
PfamPF121711.5E-57193IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.00527193IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807393IPR007087Zinc finger, C2H2
SMARTSM00355130112142IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.4E-5135168IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.26E-7142167No hitNo description
SMARTSM00355150147167IPR015880Zinc 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: 349 aa     Download sequence    Send to blast
MAAPFSAASL FAIREEDQNQ MKQQHSSTPS SSTTPAAPPP QKKRRNQPGT PYPDAEVIAL  60
SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKTNKEPKRK VYLCPEPTCV  120
HHDPSRALGD LTGIKKHYSR KHGEKKWKCD KCSKKYAVQS DWKAHSKTCG REYRCDCGTL  180
FSRRDSFITH RAFCDALAQE SAREAPNLSS AIGNQLYGNS NNMSLGLSQI PSIHDQNPQP  240
SELMRFSGAP RAGQFDHILP PNIASSSPFR HSMQTPPFFL QESNQTYHDS NKPFQGLIQL  300
SDLNNNNPSA SNLFNLPFLS NRAINSNNYS EEHNSTLLKG PISSQKAP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C7e-34143203364Zinc finger protein JACKDAW
5b3h_F7e-34143203364Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.438290.0cotyledon
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.20G005900.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150431e-166AP015043.1 Vigna angularis var. angularis DNA, chromosome 10, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028221481.10.0protein indeterminate-domain 5, chloroplastic-like
SwissprotQ9ZUL31e-114IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLI1ND000.0I1ND00_SOYBN; Uncharacterized protein
STRINGGLYMA20G00850.10.0(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
AT2G02070.11e-102indeterminate(ID)-domain 5
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]