PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_016462909.1
Organism
Nicotiana tabacum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family C2H2
Protein Properties Length: 403aa    MW: 46172.6 Da    PI: 8.7242
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_016462909.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H220.51.3e-065779123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    y+C++C+ sF r  nL+ H r+H
  XP_016462909.1 57 YVCEICNLSFQREQNLQMHRRRH 79
                    9*********************9 PP
2zf-C2H216.72e-05139161123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     ++C++C+k +  +s++k Hi+t+
  XP_016462909.1 139 WVCQKCSKGYAVQSDYKAHIKTC 161
                     58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF139124.5E-65680IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.1E-45679IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.43E-65679No hitNo description
SMARTSM003559.9E-45779IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.6995779IPR007087Zinc finger, C2H2
PROSITE patternPS0002805979IPR007087Zinc finger, C2H2
SMARTSM0035585103133IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.0E-4130160IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.43E-6134159No hitNo description
SMARTSM0035563139166IPR015880Zinc 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: 403 aa     Download sequence    Send to blast
MLASHSFLFP APSHSEPFSS PENGFIIKRK RRPAGTPDPD AQVVYLTAEM LMESDRYVCE  60
ICNLSFQREQ NLQMHRRRHK VPWKLKKKEE EKNEMEQVKK RVYVCPEPSC VHHDPSHALG  120
DLVGIKKHFR RKHSNYKQWV CQKCSKGYAV QSDYKAHIKT CGTRGHSCDC GRVFSRVETF  180
IEHQDSCKAQ GTTTTKECDV QKPKPAQCFS NYSNSRMPKN ITHPNLELEL FTSSNYNQNT  240
YNHSSFLENE QTPQLNLSFG GQSDSNYYQV QHNEKAAALI IEDTTIQVSK LKSEAKEILK  300
IAMEEKAMAA EKRQEAKCLI ELANLEMAKA REIRQQLLGE YSTVQLLKDC AEMKIVGSQS  360
HVKIITCNSC NSKQFQTVSK EAAVCREVFP ALTNYLSSSI YRR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-17137189557Zinc finger protein JACKDAW
5b3h_F2e-17137189557Zinc 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}.
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
GenBankHG9754446e-85HG975444.1 Solanum pennellii chromosome ch05, complete genome.
GenBankHG9755176e-85HG975517.1 Solanum lycopersicum chromosome ch05, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016462909.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-107IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A1S3ZEY10.0A0A1S3ZEY1_TOBAC; protein SHOOT GRAVITROPISM 5-like
STRINGXP_009787306.10.0(Nicotiana sylvestris)
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
AT1G68130.11e-93indeterminate(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. 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]