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.05G248300.1.p
Common NameGLYMA_05G248300, LOC100798167
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: 401aa    MW: 44690.6 Da    PI: 9.0909
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.05G248300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.84.6e-065274123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         y+C++C++ F r  nL+ H r+H
  Glyma.05G248300.1.p 52 YVCEICNQGFQRDQNLQMHRRRH 74
                         9*********************9 PP

2zf-C2H214.79.1e-05129151123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          ++C+ C+k +  +s++k H++t+
  Glyma.05G248300.1.p 129 WVCERCSKGYAVQSDYKAHLKTC 151
                          58*******************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.26E-55174No hitNo description
Gene3DG3DSA:3.30.160.601.6E-55174IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.975274IPR007087Zinc finger, C2H2
SMARTSM003550.00525274IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002805474IPR007087Zinc finger, C2H2
PROSITE patternPS01359054134IPR019786Zinc finger, PHD-type, conserved site
SMARTSM0035521093123IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.605.7E-4120150IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.26E-5124149No hitNo description
SMARTSM00355100129156IPR015880Zinc 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: 401 aa     Download sequence    Send to blast
MLVVNNSSPT SEAENGTAAA TNKRKRRPAG TPDPDAEVVS LSPKTLLESD RYVCEICNQG  60
FQRDQNLQMH RRRHKVPWKL LKRETPVVKK RVFVCPEPSC LHHDPCHALG DLVGIKKHFR  120
RKHSNHKQWV CERCSKGYAV QSDYKAHLKT CGTRGHSCDC GRVFSRVESF IEHQDACNVG  180
RLGPETQPQP QTQTQAVQAA ACLSRTASSE TNFSNGAPWP QSGTVIIPKP SVTVLEPSSY  240
SNPTTTAETN IINDVHPNLE LQLSTATPSS KANYNHSIQT QLQLSIGIGS LEEQLRIAMA  300
EKALAEEARK QAKRQIELAE LEFTNAKRIR QQALAELDKA YALKDHAIKH INSTMLQITC  360
LACKHHFQSP TSHDNSFVFS YITQAQSQLE KHRLKPIINS *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-17127178556Zinc finger protein JACKDAW
5b3h_F2e-17127178556Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.388140.0leaf| 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: 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.05G248300.1.p
Regulation -- Description ? help Back to Top
Source Description
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
GenBankAP0150341e-150AP015034.1 Vigna angularis var. angularis DNA, chromosome 1, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003524335.10.0protein SHOOT GRAVITROPISM 5-like
RefseqXP_028234100.10.0zinc finger protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-150IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A445KTQ30.0A0A445KTQ3_GLYSO; Protein SHOOT GRAVITROPISM 5
TrEMBLI1K5880.0I1K588_SOYBN; Uncharacterized protein
STRINGGLYMA05G33590.10.0(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
AT2G01940.11e-147C2H2-like zinc finger protein
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. 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]
  3. 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]
  4. 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]
  5. 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]