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 878662
Common NameARALYDRAFT_678106
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: 412aa    MW: 45478.1 Da    PI: 8.3609
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
878662genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.47.5e-114873126
             --S---SGGGGTS--TTTTT-SS-SS CS
  zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
             ++++ C+f++rtG C yG++C+++H+
   878662 48 PGERDCQFYLRTGLCGYGSSCRYNHP 73
             5789*********************8 PP
2zf-CCCH36.58e-1293117327
              S---SGGGGTS--TTTTT-SS-SSS CS
  zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
              ++ C +f++tG CkyG++Ck++H++
   878662  93 QPDCEYFLKTGACKYGSTCKYHHPK 117
              789********************96 PP
3zf-CCCH38.51.9e-12137162227
              -S---SGGGGTS--TTTTT-SS-SSS CS
  zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
              ++++C++++rtGtC++G  CkF+H++
   878662 137 GEKPCPYYLRTGTCRFGVACKFHHPQ 162
              689*********************97 PP
4zf-CCCH39.59.2e-13264287326
              S---SGGGGTS--TTTTT-SS-SS CS
  zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
              +++Crff+ tGtCkyGd Ck++H+
   878662 264 QPECRFFMNTGTCKYGDDCKYNHP 287
              689********************8 PP
5zf-CCCH24.35.5e-08308334127
              --S---SGGGGTS--TTTTT-SS-SSS CS
  zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
              ++++ C +f+ +G+Ck+G +CkF H++
   878662 308 PGQPACGNFRSYGFCKFGRNCKFDHPM 334
              57899********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.9E-54774IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.1174775IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-84973IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-55174IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.2E-45374IPR000571Zinc finger, CCCH-type
SMARTSM003563.3E-690117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.89690118IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-993117IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.71E-695118IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.1E-496116IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.81E-7135164IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.939135163IPR000571Zinc finger, CCCH-type
SMARTSM003565.6E-6135162IPR000571Zinc finger, CCCH-type
PfamPF006423.0E-10137162IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.4E-6139162IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.356261289IPR000571Zinc finger, CCCH-type
SMARTSM003566.0E-7262288IPR000571Zinc finger, CCCH-type
PfamPF006423.0E-10264287IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.75E-6265287IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.9E-5267286IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.62E-5303333IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.075307335IPR000571Zinc finger, CCCH-type
SMARTSM003565.5E-4307334IPR000571Zinc finger, CCCH-type
PfamPF006423.1E-6309334IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 412 aa     Download sequence    Send to blast
MRPPMSDTQH VQSSMVSIRS SDKIEDAFRK MKVNDNGGEE SNPYPDRPGE RDCQFYLRTG  60
LCGYGSSCRY NHPAHLPQDV AYHKEELPER IGQPDCEYFL KTGACKYGST CKYHHPKDRN  120
GAQPVMFNVI GLPMRQGEKP CPYYLRTGTC RFGVACKFHH PQPDNGHSTA YGMSSFPSAG  180
LQYASGLTMM STYGTLPRPQ VPQSYVPIMV SPSQGLLPPQ GWAPYMPASN SMYNVKNQPY  240
YSGSSAPMAM AVALNRGLSE SSEQPECRFF MNTGTCKYGD DCKYNHPGVR ISQPPPNLIN  300
PFVLPARPGQ PACGNFRSYG FCKFGRNCKF DHPMLPYQGL TMASSLPTPY ASPVSTHQRI  360
SPSPNRSDSK SLSNGKPDVK KESSETEKAD KDSGQLNNSE VQDLSENPLS P*
Functional Description ? help Back to Top
Source Description
UniProtPossesses RNA-binding and ribonuclease activities in vitro. {ECO:0000269|PubMed:18582464}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap878662
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4934340.0AB493434.1 Arabidopsis thaliana At1g04990 mRNA for hypothetical protein, partial cds, clone: RAAt1g04990.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002892258.10.0zinc finger CCCH domain-containing protein 3 isoform X1
SwissprotQ94AD90.0C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBLD7KEA00.0D7KEA0_ARALL; Predicted protein
STRINGAl_scaffold_0001_4290.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM23802675
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G04990.20.0C3H family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]