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_6747_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: 593aa    MW: 64501.8 Da    PI: 9.4792
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_6747_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.23.1e-055274123
                   EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                   + C+ C+k F r  nL+ H r H
  Neem_6747_f_1 52 FICEVCNKGFQREQNLQLHRRGH 74
                   89*******************88 PP

2zf-C2H213.10.00028128150123
                    EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                    +kC++C+k++  +s+ k H +t+
  Neem_6747_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
PfamPF121712.2E-55174IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.00525274IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.5E-55274IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.995274IPR007087Zinc finger, C2H2
SuperFamilySSF576671.43E-75274No hitNo description
PROSITE patternPS0002805474IPR007087Zinc finger, C2H2
SMARTSM0035513093123IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.2E-5116149IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.43E-7123148No 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: 593 aa     Download sequence    Send to blast
MSASSSAPFF EIREEDQNQM KQQHSATPTS SSAPAPPPQK KKRNQPGTPS KFICEVCNKG  60
FQREQNLQLH RRGHNLPWKL KQKTTKEVKR KVYLCPEPTC VHHDPSRALG DLTGIKKHYS  120
RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYRCDCG TLFSRRDSFI THRAFCDALA  180
QESARQPPSL SAISSHLYGS SNMGLGLSQV GPQLSSIKDQ NSQSNDILRL GGGSRSTAFD  240
HLLPPSMGSS SSFRPPQNMA STGFFMQESN QNYHEEHPSQ QGLLPNKTFH GLMQFPDLQN  300
NTSNTPSAAN LFNLSFLSNS SSSSSISNSN NANTTNSNLQ SSNLLISGHF NSDQNGTTTG  360
GVEGSNLFSN NLINDQISSG VPSLFSSSVQ NENMVPHMSA TALLQKAAQM GSTSSNNNTA  420
SLLRSFGSSS SGGTKPNFGG IFGAPENDSN LQDLMNTFAS GNSSIFGTGS VEVNAYNSPH  480
GQENPYAGYN TNRTNLEQEK RNHGQSFGNI DERKLHQNLN ISNIGGSDRM TRDFLGVGQI  540
VRSVSGGFSQ REKQQQQQQH RHGIDVSSLD SERNVAAPTS QSFGGAGGGG SFQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C9e-34124185364Zinc finger protein JACKDAW
5b3h_F9e-34124185364Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269|PubMed:24821766}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00255DAPTransfer from AT2G02070Download
Motif logo
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2084941e-137AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011014313.10.0PREDICTED: zinc finger protein NUTCRACKER-like
RefseqXP_011014314.10.0PREDICTED: zinc finger protein NUTCRACKER-like
RefseqXP_011014315.10.0PREDICTED: zinc finger protein NUTCRACKER-like
SwissprotQ9ZUL31e-141IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A2K1ZH360.0A0A2K1ZH36_POPTR; Uncharacterized protein
STRINGPOPTR_0008s14180.40.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43732654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.11e-102indeterminate(ID)-domain 5
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]