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 Niben101Scf05146g01005.1
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: 416aa    MW: 47084.9 Da    PI: 9.5329
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf05146g01005.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.74.8e-065476123
                              EEETTTTEEESSHHHHHHHHHHT CS
                   zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                              y+C++C++ F r  nL+ H r+H
  Niben101Scf05146g01005.1 54 YVCEICNQGFQRDQNLQMHRRRH 76
                              9*********************9 PP
2zf-C2H215.64.8e-05131153123
                               EEETTTTEEESSHHHHHHHHHHT CS
                   zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                               ++C +C+k +  +s++k H++t+
  Niben101Scf05146g01005.1 131 WVCDKCSKGYAVQSDYKAHLKTC 153
                               58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.63E-55376No hitNo description
PROSITE profilePS5015710.975476IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.5E-55476IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00525476IPR015880Zinc finger, C2H2-like
PROSITE patternPS01359056136IPR019786Zinc finger, PHD-type, conserved site
PROSITE patternPS0002805676IPR007087Zinc finger, C2H2
SMARTSM0035519095125IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.3E-4122152IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.63E-5126151No hitNo description
SMARTSM0035565131158IPR015880Zinc 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: 416 aa     Download sequence    Send to blast
MLSINNPNSS SDPFTSSENG NNCNRRKRRP AGTPDPDAEV VSLSPKTLLE SDQYVCEICN  60
QGFQRDQNLQ MHRRRHKVPW KLLKRETPIV RKRVFVCPEP TCLHHDPCHA LGDLVGIKKH  120
FRRKHSNHKQ WVCDKCSKGY AVQSDYKAHL KTCGTRGHSC DCGRVFSRVE SFIEHQDACS  180
FSRLRSDSKS LQQTPCLSRT ASSPTPSRDT NLTTVPWPTF LISNKPKTFL KNDVKQHNLE  240
LQLLTTTTTT SSSSPFDISV SSKRNDDHST HLQLSIGSSD FNEKNDSEND THKSRNGSNL  300
DAALTLKDEA RQRLRQAMAE KAYAEEARKQ AKRQIELAEQ EFTNAKRIRR QAQGELEKAQ  360
ALKEQAIRQI NSTLSQITCH ACKQQLQAKR IATTSIVPSC DMRLSHISSG LTEHDV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-17127179355Zinc finger protein JACKDAW
5b3h_F3e-17127179355Zinc 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_009765149.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like
RefseqXP_016513093.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-141IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A1S4DI750.0A0A1S4DI75_TOBAC; protein SHOOT GRAVITROPISM 5-like
TrEMBLA0A1U7VRY70.0A0A1U7VRY7_NICSY; protein SHOOT GRAVITROPISM 5-like
STRINGXP_009765149.10.0(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
AT2G01940.11e-142C2H2-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]