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.09G170200.1.p
Common NameGLYMA_09G170200, LOC100800187
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: 53199.4 Da    PI: 8.8944
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.09G170200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.55.6e-065779123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         y+C++C++ F r  nL+ H r+H
  Glyma.09G170200.1.p 57 YVCEICNQGFQRDQNLQMHRRRH 79
                         9*********************9 PP

2zf-C2H214.40.00011134156123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          ++C+ C+k +  +s++k H++t+
  Glyma.09G170200.1.p 134 WVCERCSKGYAVQSDYKAHLKTC 156
                          58*******************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.83E-55679No hitNo description
Gene3DG3DSA:3.30.160.601.9E-55679IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.975779IPR007087Zinc finger, C2H2
SMARTSM003550.00525779IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002805979IPR007087Zinc finger, C2H2
PROSITE patternPS01359059139IPR019786Zinc finger, PHD-type, conserved site
SMARTSM0035519098128IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.0E-4125155IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.83E-5129154No hitNo description
SMARTSM00355100134161IPR015880Zinc 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: 475 aa     Download sequence    Send to blast
MLANNLSPSS VPTSEPFPCT ENGTATNKRK RRPAGTPDPD AEVVSLSPKT LLESDRYVCE  60
ICNQGFQRDQ NLQMHRRRHK VPWKLLKRET PVVRKRVFVC PEPTCLHHDP CHALGDLVGI  120
KKHFRRKHSN HKQWVCERCS KGYAVQSDYK AHLKTCGTRG HSCDCGRVFS RVESFIEHQD  180
ACNMGRLRPE SQPLQPSACL SRTASSPSPS SETNFSTAPW PTRMIIPKPS EPPTIFMNNP  240
ITAITTAETS SKSNNKLLHP NLDLQLSTPT TTNNTSNVAN RIDAAISPKR DHHHHHENHS  300
THLQLSIGSS DMSEKNESNR NSSEKSSNSN INDQNNNNKQ SNNMALLRVQ EQAREHLRIA  360
MAEKAYAEEA RKQAKRQIEL AEQEFTNAKR IRQQAQAELD KAYSLKEHAM KQINSTMLQI  420
TCHGCKQQFQ ARNAATTPDE NSLVLSYVSS AITTEGGGEV ENDNNAKDHG KDNN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C6e-18132183556Zinc finger protein JACKDAW
5b3h_F6e-18132183556Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.611870.0hypocotyl| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expression levels gradually decrease with aging in both the shoot and root vasculature. {ECO:0000269|PubMed:16813575}.
UniprotTISSUE SPECIFICITY: Expressed in cotyledons and the vasculature of reosette leaves. Weak expression in hypocotyls and floral organs, but not detected in roots and inflorescence stems. {ECO:0000269|PubMed:24039602}.
UniprotTISSUE SPECIFICITY: Mainly expressed in the endodermis, the gravity-sensing tissue in inflorescence stems. Mostly present in stems and flowers, and, to a lower extent, in seedlings, hypocotyls, roots and the shoot apical meristem (SAM). {ECO:0000269|PubMed:16813575}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:16813575, ECO:0000269|PubMed:18259878, ECO:0000269|PubMed:24039602, ECO:0000269|PubMed:9210330}.
UniProtTranscription factor regulating starch metabolism by binding directly to the promoter of QQS (PubMed:21556057). The IDD14beta isoform attenuates the transcription factor activity by competitively forming heterodimers with reduced DNA-binding capacity(PubMed:21556057). Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Has a redundant role with IDD16 in directing leaf and floral organ morphogenesis (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:21556057, ECO:0000269|PubMed:24039602}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.09G170200.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150441e-178AP015044.1 Vigna angularis var. angularis DNA, chromosome 11, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003534121.10.0protein SHOOT GRAVITROPISM 5
RefseqXP_028181772.10.0zinc finger protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-142IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
SwissprotQ9C9X71e-142IDD14_ARATH; Protein indeterminate-domain 14
TrEMBLA0A0B2SH630.0A0A0B2SH63_GLYSO; Protein indeterminate-domain 14
TrEMBLI1L4020.0I1L402_SOYBN; Uncharacterized protein
STRINGGLYMA09G30030.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF17693289
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68130.11e-136indeterminate(ID)-domain 14
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Arendsee ZW,Li L,Wurtele ES
    Coming of age: orphan genes in plants.
    Trends Plant Sci., 2014. 19(11): p. 698-708
    [PMID:25151064]
  3. Kim JY,Ryu JY,Baek K,Park CM
    High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis.
    New Phytol., 2016. 209(1): p. 265-79
    [PMID:26256266]
  4. Ryu JY,Kim JY,Park CM
    Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis.
    Plant Signal Behav, 2015. 10(11): p. e1093715
    [PMID:26452406]
  5. Qu Y, et al.
    Peroxisomal CuAO╬ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]
  6. Shi H, et al.
    Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17.
    J. Pineal Res., 2018. 65(2): p. e12494
    [PMID:29607541]