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.13G293800.1.p
Common NameGLYMA_13G293800
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: 475aa    MW: 52317.5 Da    PI: 9.0902
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.13G293800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.79e-056183123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         ++C++C k F r  nL+ H r H
  Glyma.13G293800.1.p 61 FVCEICLKGFQRDQNLQLHRRGH 83
                         89*******************88 PP

2zf-C2H213.50.00022137159123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k++  +s+ k H +t+
  Glyma.13G293800.1.p 137 WKCEKCSKRYAVQSDWKAHSKTC 159
                          58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.8E-46083IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.3056183IPR007087Zinc finger, C2H2
PROSITE patternPS0002806383IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-4125158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.55E-5132181No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010150Biological Processleaf senescence
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 475 aa     Download sequence    Send to blast
MLEKMDDGEI SNAFPHQNPS TAASNNQPPT LKRKRNLPGN PDPEAEVIVL SPKTLMATNR  60
FVCEICLKGF QRDQNLQLHR RGHNLPWKLK QRTSKEVRKR VYVCPEKTCV HHHPSRALGD  120
LTGIKKHFCR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYKCDCGT IFSRRDSFIT  180
HRAFCDALAE ETARVNAASN ISNYSIMQNP LGPNMTTQFS SFFKPNSCSD QEPAPGNQTS  240
NKGLSLWMTQ TSQAHEAMAN NNNLHEFHQL GSVTSPTAIY GTSGNPLASC SNPPPSNYQL  300
NWVFGNKLSS NGSHQELTST ASLPLVNNIV KDNPNLQLIS VPSLYSSQHQ SHQASSANMS  360
ATALLQKAAQ VGTTSSDPSS LFHGSIGLKC NSPGQDGNKF CGMYGSSSVL TTSHHGSEAE  420
NNNNNYSGDL SQIPPTKRRH VQNEESAWGQ TRDFLGVGGA NHLPPFINQR MDLI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C6e-37133200370Zinc finger protein JACKDAW
5b3h_F6e-37133200370Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}.
UniprotTISSUE SPECIFICITY: Highly expressed in vegetative organs and at lower levels in flowers and siliques. Expressed predominantly in roots. In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000305|PubMed:21265895}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.13G293800.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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_003539541.20.0zinc finger protein MAGPIE
RefseqXP_028193041.10.0zinc finger protein MAGPIE-like
SwissprotQ9FFH31e-136IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLA0A445IBV90.0A0A445IBV9_GLYSO; Zinc finger protein NUTCRACKER
TrEMBLI1M3P40.0I1M3P4_SOYBN; Uncharacterized protein
STRINGGLYMA13G36960.10.0(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-136C2H2 family protein
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]
  2. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]