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 Niben101Scf00509g00020.1
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: 473aa    MW: 52285.7 Da    PI: 10.0564
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf00509g00020.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.32.8e-056789123
                              EEETTTTEEESSHHHHHHHHHHT CS
                   zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                              + C++C+k F r  nL+ H r H
  Niben101Scf00509g00020.1 67 FICEICNKGFQRDQNLQLHRRGH 89
                              89*******************88 PP
2zf-C2H211.30.0011143165123
                               EEETTTTEEESSHHHHHHHHHHT CS
                   zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                               +kC +C+k +  +s+ k H + +
  Niben101Scf00509g00020.1 143 WKCDKCSKKYAVQSDWKAHSKIC 165
                               58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.2E-56689IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.96E-76689No hitNo description
PROSITE profilePS5015710.8456789IPR007087Zinc finger, C2H2
SMARTSM003550.0226789IPR015880Zinc finger, C2H2-like
PfamPF121715.6E-56789IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS0002806989IPR007087Zinc finger, C2H2
SMARTSM00355100108138IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.2E-4131164IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.96E-7138163No hitNo description
SMARTSM00355150143163IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 473 aa     Download sequence    Send to blast
MMSDNGLSSL PSSIRGFIQD PNPSNNIPNP NPNPTSNKRK RNLPGNPDPD AEVIALSPKS  60
LMATNRFICE ICNKGFQRDQ NLQLHRRGHN LPWKLKQRTN KEVKKKVYIC PEKTCVHHDP  120
SRALGDLTGI KKHFSRKHGE KKWKCDKCSK KYAVQSDWKA HSKICGTREY KCDCGTLFSR  180
KDSFITHRAF CDALAEESAR FTSVPNTANL NLRNQLMNGG MTNHQQQRGI NSQFGSLFRP  240
ELMGLGLDPS SQLYLDGQKP RLPLWLDNAN SGNLNDFLAT PSSSSLPYDL VQMASHNSNN  300
QWLINGNGAS SSSMASPRVV LKEEEEINRR NLSENTINSS KYYNNSQQET TPPQAAHMSA  360
TALLQKAAQI GSTRSSNSAL FSSTGFGHMG PSKFGSTLAT HDNIQGNNAL LLGDTNANSL  420
MMMQNKGKQV NIPSGNTEGS LTRDFLGVGG NENRPFLQQR ELAKFGNSAS SIF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-37139206370Zinc finger protein JACKDAW
5b3h_F2e-37139206370Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019234944.10.0PREDICTED: protein indeterminate-domain 9-like isoform X1
SwissprotQ944L31e-126IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLA0A1J6KXM90.0A0A1J6KXM9_NICAT; Protein indeterminate-domain 9
STRINGXP_009771226.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10324350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G45260.11e-116C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]