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 LOC_Os01g39110.1
Common NameLOC4326304, Os01g0572300, OSNPB_010572300
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family C2H2
Protein Properties Length: 538aa    MW: 57410.9 Da    PI: 7.9713
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g39110.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.65.1e-0694116123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C++Cgk F r  nL+ H r H
  LOC_Os01g39110.1  94 FVCEICGKGFQRDQNLQLHRRGH 116
                       89*******************88 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.58E-793116No hitNo description
SMARTSM003550.01294116IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.5E-594116IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.61494116IPR007087Zinc finger, C2H2
PROSITE patternPS00028096116IPR007087Zinc finger, C2H2
SMARTSM00355130136166IPR015880Zinc finger, C2H2-like
SuperFamilySSF576672.58E-7166191No hitNo description
SMARTSM00355160171191IPR015880Zinc 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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009030anatomycarpel
PO:0007130developmental stagesporophyte reproductive stage
PO:0007606developmental stagegynoecium development stage
Sequence ? help Back to Top
Protein Sequence    Length: 538 aa     Download sequence    Send to blast
MFHHHLQQQQ QQEEEEGGGL FLVEEAAEAA DQQQESSMSN LTSSASTVPP PPPPSSGNNG  60
NNSNKRKRSL PGNPDPEAEV VALSPATLMA TNRFVCEICG KGFQRDQNLQ LHRRGHNLPW  120
KLKQRGSKEA VRKKVYICPE ASCVHHDPSR ALGDLTGIKK HFFRKHGEKK WKCDKCSKKY  180
AVHSDWKAHS KICGTREYKC DCGTIFSRRD SFITHRAFCD ALTEESAKAI GGIPAAMAAP  240
GHHHHHHHHH HQLLFSPPPV MAHHQELAAL QEQQQQQHHQ DVMQSPHQHQ QQQQQRQQLV  300
QQNCGYAVKP EMAPWPTTMP YDHHHPLLQP LCNANAAATA QSSATSAPPT TPQLPAAAAA  360
AHLSATALLQ KAAQMGATIG GAGTGAAGAH YAHMASPAGA GAPAGGSATF GLGLSCLNTH  420
QDGGGGGGNG LIPAGMMGHL ARTASHGRSG EDVAGAGGGG GDGMTRDFLG LRAFSHRDIL  480
LAGFDSSCMG HVNAAAGMAG YEPPPPHHGQ PQHQHQQQQQ QQQGGSNEPW HGMGSHS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-33167228364Zinc finger protein JACKDAW
5b3h_F1e-33167228364Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1120133KLKQRGSKEAVRKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.545180.0leaf| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1567658240.0
Expression AtlasA0A0N7KD71-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:25829440}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). 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). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g39110.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g39110
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2892090.0AK289209.1 Oryza sativa Japonica Group cDNA, clone: J100058I16, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622202.10.0protein indeterminate-domain 7
SwissprotQ9ZWA61e-115IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A0N7KD710.0A0A0N7KD71_ORYSJ; Os01g0572300 protein
STRINGOS01T0572300-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20238320
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.16e-92C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]