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 907942
Common NameARALYDRAFT_907942
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: 354aa    MW: 39716.2 Da    PI: 7.1257
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
907942genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH26.98.5e-093454526
             --SGGGGTS--TTTTT-SS-SS CS
  zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
             +C +++r G+C+yG+rC++ H+
   907942 34 ICTYYQR-GICSYGSRCRYEHV 54
             7**9999.***********997 PP
2zf-CCCH19.81.4e-06135157326
              S---SGGGGTS--TTTTT-SS-SS CS
  zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
              +++C+ fa+ G C++Gd C+ +Hg
   907942 135 QPICS-FAAAGDCPRGDECPHIHG 157
              68999.*************99997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.2E-4127IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.54128IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.79E-7326IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.6052956IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-43155IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-53153IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.4E-43453IPR000571Zinc finger, CCCH-type
PfamPF006423.7E-63454IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.652132159IPR000571Zinc finger, CCCH-type
SMARTSM003560.013133158IPR000571Zinc finger, CCCH-type
SuperFamilySSF578501.86E-13190265No hitNo description
Gene3DG3DSA:3.30.40.101.0E-9194260IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001624.58E-4200260No hitNo description
PROSITE profilePS5008912.342201259IPR001841Zinc finger, RING-type
PfamPF000972.8E-7201258IPR018957Zinc finger, C3HC4 RING-type
SMARTSM001844.0E-7201258IPR001841Zinc finger, RING-type
PROSITE patternPS005180225234IPR017907Zinc finger, RING-type, conserved site
SMARTSM003560.33288316IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.272288317IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 354 aa     Download sequence    Send to blast
MSKRILCKFF AHGACLKGEH CEFSHDWKDP TNNICTYYQR GICSYGSRCR YEHVKASRPH  60
PSASSSSPVP LSSPASASNP LARVFLPGVS ERDLSPVPSS CLKPTWNLDS FHQDSLDSLD  120
EVNTFNPGTV KPEEQPICSF AAAGDCPRGD ECPHIHGNIC PTCGKCCLHP FRPEEREEHK  180
KVCEKKQKQL EALKISQEIE CCVCLERVLS KATPAERKFG LLTECDHAFC IACIRNWRSS  240
SPSTGMDVNS TLRACPICRK LSYFVVPSVI WFSAPEEKKE IMDNYREKLR SIDCKHFSFG  300
DGNCPFGTSC FYKHAYHDGR LEEVVLRHLD AEDGQTVIAK DIRLSDFLES MHI*
Cis-element ? help Back to Top
SourceLink
PlantRegMap907942
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGQ9035760.0GQ903576.1 Arabidopsis thaliana ecotype Wassilewskija chloroplast luminal 19 kDa protein (At3g63540) gene, complete cds; and CCCH-type zinc finger protein C3H69 (At3g63550) gene, complete cds, alternatively spliced; nuclear genes for chloroplast products.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002876728.10.0putative RING-type E3 ubiquitin transferase C3H69 isoform X2
SwissprotE0X9N40.0C3H69_ARATH; Putative RING-type E3 ubiquitin transferase C3H69
TrEMBLD7LTS20.0D7LTS2_ARALL; Uncharacterized protein
STRINGscaffold_503646.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM29442763
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-162C3H family protein
Publications ? help Back to Top
  1. Wang CT,Ho CH,Hseu MJ,Chen CM
    The subtelomeric region of the Arabidopsis thaliana chromosome IIIR contains potential genes and duplicated fragments from other chromosomes.
    Plant Mol. Biol., 2010. 74(1-2): p. 155-66
    [PMID:20652368]