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 mrna00904.1-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: 667aa    MW: 72054.5 Da    PI: 9.5008
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna00904.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2163.5e-055779123
                             EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                             + C+ C+k F r  nL+ H r H
  mrna00904.1-v1.0-hybrid 57 FICEVCNKGFQREQNLQLHRRGH 79
                             89*******************88 PP
2zf-C2H212.90.00033133155123
                              EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                              +kC++C+k++  +s+ k H +t+
  mrna00904.1-v1.0-hybrid 133 WKCEKCSKRYAVQSDWKAHSKTC 155
                              58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF121712.5E-55679IPR022755Zinc finger, double-stranded RNA binding
Gene3DG3DSA:3.30.160.601.7E-55779IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.1E-75779No hitNo description
SMARTSM003550.00525779IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.995779IPR007087Zinc finger, C2H2
PROSITE patternPS0002805979IPR007087Zinc finger, C2H2
SMARTSM0035519098128IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.3E-4121154IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.1E-7128153No hitNo description
SMARTSM00355130133153IPR015880Zinc 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: 667 aa     Download sequence    Send to blast
MAASSSSLFG IREEDQNLMK QQQHSSSTPT SSTATAPPAP PPQNKKKRNQ PGTPSKFICE  60
VCNKGFQREQ NLQLHRRGHN LPWKLKQKTT KEPKRKVYLC PEPTCVHHDP SRALGDLTGI  120
KKHFFRKHGE KKWKCEKCSK RYAVQSDWKA HSKTCGTREY RCDCGTLFSR RDSFITHRAF  180
CDALAQESAR HQPNLSSLGS NLYGGTSNTG LALSHHHHQQ VVGPNIDHHH HNNHSAAADI  240
LRLGGGGGNA RTGQFDHLLS PPSMGSSFRP PQSSGTFFMN QDQPSQQYHH DQEQLQSKQF  300
HGLMQFSDHQ NNSNNSSSGG NLFNLPFLSN SSNSNNATGA SNTNLLVHPE HQYNSNGSGA  360
GGEGGSSLFS SHMIGGGGGD HISSGNVSSL YSSQVQNNHH GVSHMSATAL LQKAAQMGST  420
TSSNNTSASL LRSFGSTSST KSERPATAAS LVPANLGGIF GGSSENENSL QDLMNSFAAG  480
GGSSSMFGGG SDRLTRDFLG VGQIVRSMSG GQQQTQIEHM SSLDSESNAA PSTQSFGGGG  540
NFHVEAVMSH DLEYTFRAGK YVACFNGSRF VRKFILRIKF WINLSVMKGM MRGSREHSGG  600
DPTRRRIRLH QDVFGVEFSA KRDGVEQTGV QASQGGCFSK NQEEVSCGSA AALVEDMGSW  660
LGRPLD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-35129201371Zinc finger protein JACKDAW
5b3h_F2e-35129201371Zinc 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
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna00904.1-v1.0-hybrid
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004297791.10.0PREDICTED: protein indeterminate-domain 5, chloroplastic
SwissprotQ9ZUL31e-122IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A2P6R4H00.0A0A2P6R4H0_ROSCH; Putative transcription factor C2H2 family
STRINGXP_004297791.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF15363397
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.19e-98indeterminate(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]