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_016446981.1
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: 471aa    MW: 52091.3 Da    PI: 9.8728
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_016446981.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.32.8e-056688123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    + C++C+k F r  nL+ H r H
  XP_016446981.1 66 FICEICNKGFQRDQNLQLHRRGH 88
                    89*******************88 PP
2zf-C2H2120.00065142164123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     +kC++C+k +  +s+ k H + +
  XP_016446981.1 142 WKCEKCSKKYAVQSDWKAHSKIC 164
                     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-56588IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.52E-76588No hitNo description
PfamPF121715.6E-56688IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0226688IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.8456688IPR007087Zinc finger, C2H2
PROSITE patternPS0002806888IPR007087Zinc finger, C2H2
SMARTSM00355100107137IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.5E-4130163IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.52E-7137162No hitNo description
SMARTSM00355140142162IPR015880Zinc 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: 471 aa     Download sequence    Send to blast
MSYNGLSSLP SSIRGFIQDP NPSSNVPNPN SNPASNKRKR NLPGNPDPDA EVIALSPKSL  60
MATNRFICEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTNK EVKKKVYICP EKTCVHHDPS  120
RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKICGTREYK CDCGTLFSRK  180
DSFITHRAFC DALAEESARF TSFPNTANLN LRNQLLNGGM TNLQQQSGNS HFGSLFWPEL  240
MGLGLNPSSQ LNLDGQKPRL PLWLDNANSG SPNDFLATPS STTSSLPHDL VQMASHNSNN  300
QWFIGASASS SSMQQPRVVL KEEEEDINRR NLSESTINSS MYYNNSQQET TTPQAAHMSA  360
TALLQKAAQM GSTRSSNSAL FNSTEFGLMG SSNFGSTLAT HDNIQGNNGL LLGDTNANSL  420
MMRQNKGKQV NITSGNTEGS LTRDFLGVGG NENRPFLQQR ELAKFGNSAI F
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C9e-38138205370Zinc finger protein JACKDAW
5b3h_F9e-38138205370Zinc 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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754501e-126HG975450.1 Solanum pennellii chromosome ch11, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009771226.10.0PREDICTED: zinc finger protein JACKDAW-like
RefseqXP_016446981.10.0PREDICTED: protein indeterminate-domain 9-like
SwissprotQ944L31e-122IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLA0A1S3Y4A70.0A0A1S3Y4A7_TOBAC; protein indeterminate-domain 9-like
TrEMBLA0A1U7W1Z70.0A0A1U7W1Z7_NICSY; zinc finger protein JACKDAW-like
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-111C2H2-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]