PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID SMil_00019188-RA_Salv
Organism
Salvia miltiorrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lamiaceae; Nepetoideae; Mentheae; Salvia
Family C2H2
Protein Properties Length: 405aa    MW: 44617.3 Da    PI: 9.0361
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
SMil_00019188-RA_SalvgenomeNDCTCMView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.74.6e-064466123
                           EEETTTTEEESSHHHHHHHHHHT CS
                zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                           y+C++C++ F r  nL+ H r+H
  SMil_00019188-RA_Salv 44 YVCEICNQGFQRDQNLQMHRRRH 66
                           9*********************9 PP
2zf-C2H215.64.6e-05121143123
                            EEETTTTEEESSHHHHHHHHHHT CS
                zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                            ++C +C+k +  +s++k H++t+
  SMil_00019188-RA_Salv 121 WVCDKCSKGYAVQSDYKAHLKTC 143
                            58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.6E-54366IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.76E-64366No hitNo description
PROSITE profilePS5015710.974466IPR007087Zinc finger, C2H2
SMARTSM003550.00524466IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002804666IPR007087Zinc finger, C2H2
PROSITE patternPS01359046126IPR019786Zinc finger, PHD-type, conserved site
SMARTSM0035521085115IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.3E-4112142IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.76E-6116141No hitNo description
SMARTSM0035565121148IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009590Biological Processdetection of gravity
GO:0009959Biological Processnegative gravitropism
GO:0009965Biological Processleaf morphogenesis
GO:0010031Biological Processcircumnutation
GO:0010601Biological Processpositive regulation of auxin biosynthetic process
GO:0048444Biological Processfloral organ morphogenesis
GO:2000012Biological Processregulation of auxin polar transport
GO:2000904Biological Processregulation of starch metabolic process
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 405 aa     Download sequence    Send to blast
MLSNIDPSAE YAASKRKRRP AGTPDPDAEV VSLSPKTLLE SDRYVCEICN QGFQRDQNLQ  60
MHRRRHKVPW KLLKRETPVA RKRVFVCPEP SCLHHDPCHA LGDLVGIKKH FRRKHSNQKQ  120
WVCDKCSKGY AVQSDYKAHL KTCGTRGHSC DCGRVFSRVE SFIEHQDACS MGRLRSDALP  180
PPACLSRTAS SPSPSSDTNL SGVAPWQAAA AALAKPSNEA IFVTASTCPP NLELQLLTKS  240
NEDHSTQLQL SIGSSEINGE AEISRCSPRG STTGGERPAA AARVKEQAQE QLRVAMAEKA  300
YAEEARQVAK RQMEAAEQEF SNAKRIRQAA QAELEKAQAL KDHATKKINA AMLEITCHSC  360
KSKFQQALFA ENSNSNSNSN SNSIGLNFIS SALRGWEGKK ADHEK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-17118169455Zinc finger protein JACKDAW
5b3h_F1e-17118169455Zinc finger protein JACKDAW
Search in ModeBase
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00254DAPTransfer from AT2G01940Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1067961e-141AK106796.1 Oryza sativa Japonica Group cDNA clone:002-116-B04, full insert sequence.
GenBankAK1195951e-141AK119595.1 Oryza sativa Japonica Group cDNA clone:002-117-D09, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011073161.10.0protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-142IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A4D8XXF20.0A0A4D8XXF2_SALSN; Uncharacterized protein
STRINGAquca_002_01252.10.0(Aquilegia coerulea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10222482
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-131C2H2-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 CuAOζ 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]