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 325295
Common NameARALYDRAFT_325295
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C3H
Protein Properties Length: 242aa    MW: 25478.8 Da    PI: 10.2662
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
325295genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.83.3e-073861225
             -S---SGGGGTS--TTTTT-SS-S CS
  zf-CCCH  2 ktelCrffartGtCkyGdrCkFaH 25
             k ++C  f+ t  C++Gd+C+F H
   325295 38 KSKPCTKFFSTSGCPFGDNCHFLH 61
             7789******************** PP
2zf-CCCH38.81.5e-12207232127
              --S---SGGGGTS--TTTTT-SS-SSS CS
  zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
              ykt++C+++++ G C yGdrC+FaHg+
   325295 207 YKTKICDRYSK-GNCTYGDRCHFAHGE 232
              9**********.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.0843664IPR000571Zinc finger, CCCH-type
SMARTSM003560.0683663IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-63763IPR000571Zinc finger, CCCH-type
PfamPF006422.5E-53861IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-83861IPR000571Zinc finger, CCCH-type
SuperFamilySSF547914.53E-14107183IPR004088K Homology domain, type 1
SMARTSM003222.5E-11113183IPR004087K Homology domain
PROSITE profilePS5008413.879114178IPR004088K Homology domain, type 1
Gene3DG3DSA:3.30.1370.102.1E-15115182IPR004088K Homology domain, type 1
CDDcd001051.20E-11116178No hitNo description
PfamPF000132.5E-10117179IPR004088K Homology domain, type 1
Gene3DG3DSA:4.10.1000.101.1E-16201236IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.97E-9206236IPR000571Zinc finger, CCCH-type
SMARTSM003562.0E-8206232IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.934206233IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-9207232IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 242 aa     Download sequence    Send to blast
MDARKRGRPE AAASHNSNGG FKRSKQEMES ISTGLGSKSK PCTKFFSTSG CPFGDNCHFL  60
HYVPGGYNAA AQMTNLRPPV AQVSRNMQGF GGPGGRFSGR GDQGPGPVSI FGASATSKIS  120
VDASLAGAII GKGGIHSKQI CRQTGAKLSI KDHERDPNLK IIELEGTFEQ INVASGMVRE  180
LIGRLGSAKK PQGIGGPEGK PHPGSNYKTK ICDRYSKGNC TYGDRCHFAH GEAELRRSGI  240
A*
Cis-element ? help Back to Top
SourceLink
PlantRegMap325295
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1179740.0AK117974.1 Arabidopsis thaliana At5g06770 mRNA for unknown protein, complete cds, clone: RAFL19-18-C06.
GenBankBT0052600.0BT005260.1 Arabidopsis thaliana At5g06770 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002873278.11e-177zinc finger CCCH domain-containing protein 52 isoform X1
SwissprotQ9FG301e-170C3H52_ARATH; Zinc finger CCCH domain-containing protein 52
TrEMBLD7LZT81e-176D7LZT8_ARALL; KH domain-containing protein
STRINGfgenesh1_pm.C_scaffold_60005151e-177(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM23362875
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06770.11e-159C3H family protein
Publications ? help Back to Top
  1. Yan Z,Jia J,Yan X,Shi H,Han Y
    Arabidopsis KHZ1 and KHZ2, two novel non-tandem CCCH zinc-finger and K-homolog domain proteins, have redundant roles in the regulation of flowering and senescence.
    Plant Mol. Biol., 2017. 95(6): p. 549-565
    [PMID:29076025]