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.19G234500.1.p
Common NameGLYMA_19G234500, LOC100806469
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: 508aa    MW: 54935.4 Da    PI: 8.5414
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.19G234500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.13.1e-0595117123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          + C++C+k F r  nL+ H r H
  Glyma.19G234500.1.p  95 FICEICNKGFQRDQNLQLHRRGH 117
                          89*******************88 PP

2zf-C2H211.90.00072171193123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k +  +s+ k H + +
  Glyma.19G234500.1.p 171 WKCEKCSKKYAVQSDWKAHSKIC 193
                          58*****************9876 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.3E-594117IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.31E-694117No hitNo description
SMARTSM003550.02295117IPR015880Zinc finger, C2H2-like
PfamPF121716.1E-595117IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.84595117IPR007087Zinc finger, C2H2
PROSITE patternPS00028097117IPR007087Zinc finger, C2H2
SMARTSM0035596136166IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.9E-4159192IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.31E-6166191No hitNo description
SMARTSM00355140171191IPR015880Zinc 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: 508 aa     Download sequence    Send to blast
MSNSNITSCD SWSFTTENNN NGEDAAATVK QQLEMLGQLY SPNSNTSTTT NNSNGGSNAD  60
SQPPAKKKRN LPGNPDPSAE VIALSPNTLV ATNRFICEIC NKGFQRDQNL QLHRRGHNLP  120
WKLKLRTTTE VRKRVYVCPE PSCVHHNPAR ALGDLTGIKK HFSRKHGDKK WKCEKCSKKY  180
AVQSDWKAHS KICGTKEYKC DCGTIFSRRD SFVTHRAFCD ALSEENNKCN EVPKMHGSNL  240
QPPIIPNIVA SLPIINANNH KNPFSLPHDL MTTIPAKPFN NMAAAFTRSL SSTSSPSQLS  300
SNSPNINMLV ENGLLSPHMS ATALLQKAAQ MGATVNSNNN SMMSSDEKSF IVTSMAPPSY  360
GIMNHNMHNG QQDLSQYNFN ANGMVDGGSN NGMGMGGLDM FNAILDQSKA LSKIIEQNNR  420
NSTYNGVLHA MNNGKSSDPI EGGGTKGSEA VNHVMTLDLL GIGGGGGDGN FYGGDQQSEI  480
AAGDGIWRNW SNKNAGLESF SATNSTM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-33167225361Zinc finger protein JACKDAW
5b3h_F3e-33167225361Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.621270.0cotyledon| leaf| pod
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.19G234500.1.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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003553722.10.0protein indeterminate-domain 12
RefseqXP_028216112.10.0protein indeterminate-domain 12-like
SwissprotQ9FFH31e-107IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLA0A445FKQ60.0A0A445FKQ6_GLYSO; Zinc finger protein NUTCRACKER isoform A
TrEMBLI1NBY80.0I1NBY8_SOYBN; Uncharacterized protein
STRINGGLYMA19G42280.10.0(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
AT1G03840.12e-97C2H2 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]