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 Carubv10026891m
Common NameCARUB_v10026891mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family ZF-HD
Protein Properties Length: 293aa    MW: 32275.7 Da    PI: 6.3207
Description ZF-HD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10026891mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1ZF-HD_dimer101.17.9e-3276129357
      ZF-HD_dimer   3 kvrYkeClkNhAaslGghavDGCgEfmpsegeegtaaalkCaACgCHRnFHRrev 57 
                      ++r++eClkN+A+++GghavDGCgEfmp+ g egt++alkCaACgCHRnFHR+e 
  Carubv10026891m  76 RFRFRECLKNQAVNIGGHAVDGCGEFMPA-GIEGTIDALKCAACGCHRNFHRKEL 129
                      789*************************9.999********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF047702.5E-2877128IPR006456ZF-HD homeobox protein, Cys/His-rich dimerisation domain
ProDomPD1257741.0E-2478129IPR006456ZF-HD homeobox protein, Cys/His-rich dimerisation domain
TIGRFAMsTIGR015666.6E-2978128IPR006456ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE profilePS5152325.41579128IPR006456ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE patternPS000280115139IPR007087Zinc finger, C2H2
SuperFamilySSF466891.24E-18188260IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.608.5E-31188260IPR009057Homeodomain-like
TIGRFAMsTIGR015657.2E-26199255IPR006455Homeodomain, ZF-HD class
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010371Biological Processregulation of gibberellin biosynthetic process
GO:0010431Biological Processseed maturation
GO:0003677Molecular FunctionDNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 293 aa     Download sequence    Send to blast
MEFEDNNNNN NEEEEQEDDM NLHEEEEEDD AVYDSPPLSR GVVKASTESH ETTGTTSTGG  60
GGGGGFMVVH GGGGSRFRFR ECLKNQAVNI GGHAVDGCGE FMPAGIEGTI DALKCAACGC  120
HRNFHRKELP YFHHAPPQHQ APPPPPPGFY RLPAPVSYRP PPSQAPPLQL ALPPPQRERS  180
EDPMETSSAE AGGGGGGIRK RFRTKFTAEQ KERMLALAER IGWRIQRQDD EVIQRFCQET  240
GVPRQVLKVW LHNNKHTLGK SPPPLLHHHH HQPPPTTTTA PQSSFHHEQD QP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wh5_A3e-351982571675ZF-HD homeobox family protein
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00588DAPTransfer from AT5G65410Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10026891m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0114790.0AB011479.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MNA5.
GenBankBT0023850.0BT002385.1 Arabidopsis thaliana putative protein (At5g65410) mRNA, complete cds.
GenBankBT0063040.0BT006304.1 Arabidopsis thaliana At5g65410 mRNA, complete cds.
GenBankCP0026880.0CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006280898.10.0zinc-finger homeodomain protein 1
SwissprotQ9FKP81e-139ZHD1_ARATH; Zinc-finger homeodomain protein 1
TrEMBLR0EY000.0R0EY00_9BRAS; Uncharacterized protein
STRINGXP_006280898.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM132371728
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65410.11e-104homeobox protein 25
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Bueso E,Serrano R,Pallás V,Sánchez-Navarro JA
    Seed tolerance to deterioration in arabidopsis is affected by virus infection.
    Plant Physiol. Biochem., 2017. 116: p. 1-8
    [PMID:28477474]