PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Neem_36204_f_1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family C2H2
Protein Properties Length: 170aa    MW: 19642.5 Da    PI: 10.4829
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_36204_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.46.1e-065274123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    + C+ C+k F r  nL+ H r H
  Neem_36204_f_1 52 FICEVCNKGFQREQNLQLHRRGH 74
                    89*******************88 PP

2zf-C2H215.35.7e-05128150123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     +kC++C+k++  +s+ k H +t+
  Neem_36204_f_1 128 WKCEKCSKRYAVQSDWKAHSKTC 150
                     58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF121714.4E-65174IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.00525274IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.995274IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.0E-65274IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.77E-85274No hitNo description
PROSITE patternPS0002805474IPR007087Zinc finger, C2H2
SMARTSM0035513093123IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.3E-6116149IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.77E-8123148No hitNo description
SMARTSM00355130128148IPR015880Zinc 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: 170 aa     Download sequence    Send to blast
MSASSSAPFF EIREEDQNQM KQQHSATPTS SSAPAPPPQK KKRNQPGTPS KFICEVCNKG  60
FQREQNLQLH RRGHNLPWKL KQKTTKEVKR KVYLCPEPTC VHHDPSRALG DLTGIKKHYS  120
RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYRCDCG TLFSRIIMSR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-23124165344Zinc finger protein JACKDAW
5b3h_F4e-23124165344Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:0000305|PubMed:19726569}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2084941e-138AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006379802.21e-110protein indeterminate-domain 5, chloroplastic
RefseqXP_006379803.21e-110protein indeterminate-domain 5, chloroplastic
RefseqXP_006379804.21e-110protein indeterminate-domain 5, chloroplastic
RefseqXP_024463340.11e-110protein indeterminate-domain 5, chloroplastic
RefseqXP_024463341.11e-110protein indeterminate-domain 5, chloroplastic
SwissprotQ8GYC12e-85IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLA0A2K1ZH361e-108A0A2K1ZH36_POPTR; Uncharacterized protein
STRINGPOPTR_0008s14180.41e-109(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.14e-85indeterminate(ID)-domain 4
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]