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 Niben101Scf02911g03012.1
Organism
Nicotiana benthamiana
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: 392aa    MW: 44617.9 Da    PI: 8.8938
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf02911g03012.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H220.51.2e-065880123
                              EEETTTTEEESSHHHHHHHHHHT CS
                   zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                              y+C++C+ sF r  nL+ H r+H
  Niben101Scf02911g03012.1 58 YVCEICNLSFQREQNLQMHRRRH 80
                              9*********************9 PP
2zf-C2H216.81.9e-05128150123
                               EEETTTTEEESSHHHHHHHHHHT CS
                   zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                               ++C++C+k +  +s++k Hi+t+
  Niben101Scf02911g03012.1 128 WVCQKCSKGYAVQSDYKAHIKTC 150
                               58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF139124.4E-65781IPR007087Zinc finger, C2H2
SuperFamilySSF576673.32E-55780No hitNo description
Gene3DG3DSA:3.30.160.601.0E-45780IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.6995880IPR007087Zinc finger, C2H2
SMARTSM003559.9E-45880IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806080IPR007087Zinc finger, C2H2
SMARTSM003558592122IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.9E-4119149IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.32E-5123148No hitNo description
SMARTSM0035563128155IPR015880Zinc 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: 392 aa     Download sequence    Send to blast
MLASHSFLFP AAPSHSGPFS SPENGFIIKR KRRPAGTPDP DAQVVCLTAE MLMESDRYVC  60
EICNLSFQRE QNLQMHRRRH KVPWKLKKKR VYVCPEPSCV HHDPSHALGD LVGIKKHFRR  120
KHSNYKQWVC QKCSKGYAVQ SDYKAHIKTC GTRGHSCDCG RVFSRVETFI EHQDSCKAQG  180
TITSKECDVQ TPKPAQYFSN YSNSRMPKNI THPNLELELF TSSNYNQNTY NYSTVLENEQ  240
TPQLNLSFGG QSDSNYYQVQ HNEKAAALII EDTTIQVSKL KSEAKEILKI AMEEKAMAAE  300
KRQEAKCLIE LANLEMAKAR EIRQQLLGEY STVQLLKDCA EMKIVGSQSH VKIITCNSCN  360
SKQFQTVSKE AAVCRDVFPA LTNYLSSSIY RR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-17126178557Zinc finger protein JACKDAW
5b3h_F2e-17126178557Zinc 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016462909.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like
RefseqXP_019246647.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-105IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A1J6J0F10.0A0A1J6J0F1_NICAT; 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
AT2G01940.14e-96C2H2-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]