PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID mrna04812.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family C2H2
Protein Properties Length: 503aa    MW: 54979.5 Da    PI: 9.2361
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna04812.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.10.000147595323
                             ETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                             C++C+k F r  nL+ H r H
  mrna04812.1-v1.0-hybrid 75 CEICNKGFQRDQNLQLHRRGH 95
                             *******************88 PP
2zf-C2H211.90.00071150172123
                              EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                              +kC++C+k +  +s+ k H + +
  mrna04812.1-v1.0-hybrid 150 WKCEKCSKKYAVQSDWKAHSKIC 172
                              58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.69E-77295No hitNo description
Gene3DG3DSA:3.30.160.602.3E-57295IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.8247395IPR007087Zinc finger, C2H2
SMARTSM003550.117395IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807595IPR007087Zinc finger, C2H2
SMARTSM00355110115145IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.6E-4138171IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.69E-7145170No hitNo description
SMARTSM00355140150170IPR015880Zinc 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: 503 aa     Download sequence    Send to blast
MMSSEDGLSV PSTIGGGFLL QESNPSPNPN PNTINPALKR KRNLPGTPGK YIAYPDAEVI  60
ALSPKSLMAT NRFLCEICNK GFQRDQNLQL HRRGHNLPWK LKQRSKLEVI RKKVYVCPEK  120
SCVHHEPSRA LGDLTGIKKH FSRKHGEKKW KCEKCSKKYA VQSDWKAHSK ICGTREYRCD  180
CGTLFSRKDS FITHRAFCDA LAAEESARFG STSTATNINI PSFMNGSITS NQPHHHQQQQ  240
QARNIPQFLP IFQHQQQPEF PGSDHLSAAN LGLSEMVQPA SSSMDMFGPS SSQNQWLNKF  300
PEASFTNGNL SVSSLMTRGL KEEEDSKANL NLSGTMSSGS FYNNNQSPGH MSATALLQKA  360
AQMGSTTSNN NDVDIPAAFG FMNSSPYSHN KNNENFNVLL NSLSSSTQMG DGSPSLFSTS  420
FLSNKINHLN QMMNLPLGTG SSTSRVNETE KSSLTRDFLG VGGVNGVTFF QQELGAASLA  480
SMGSAMDHLT QYSSSTSGAT QQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-35146213369Zinc finger protein JACKDAW
5b3h_F5e-35146213369Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1101112KQRSKLEVIRKK
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna04812.1-v1.0-hybrid
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004295016.10.0PREDICTED: protein indeterminate-domain 9-like
SwissprotQ944L31e-109IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLA0A2P6QHH20.0A0A2P6QHH2_ROSCH; Putative transcription factor C2H2 family
STRINGXP_004295016.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF18134275
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G45260.12e-97C2H2-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]