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 Araha.5092s0013.1.p
Organism
Arabidopsis halleri
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: 45530.2 Da    PI: 8.1601
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.5092s0013.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.76.3e-114873126
                         --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                         ++++ C+f++rtG C yG++C+++H+
  Araha.5092s0013.1.p 48 PGERDCQFYLRTGLCGYGSSCRYNHP 73
                         5789*********************9 PP
2zf-CCCH36.77.1e-1294117427
                          ---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                          + C +f++tG CkyG++Ck++H++
  Araha.5092s0013.1.p  94 PDCEYFLKTGACKYGSTCKYHHPK 117
                          78********************96 PP
3zf-CCCH38.51.9e-12137162227
                          -S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++C++++rtGtC++G  CkF+H++
  Araha.5092s0013.1.p 137 GEKPCPYYLRTGTCRFGVACKFHHPQ 162
                          689*********************97 PP
4zf-CCCH391.4e-12264287326
                          S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                          +++Crff+ tGtCkyGd Ck++H+
  Araha.5092s0013.1.p 264 QPECRFFMNTGTCKYGDDCKYNHS 287
                          689********************7 PP
5zf-CCCH283.6e-09308334127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++ C +f+ +G+Ck+G +CkF H++
  Araha.5092s0013.1.p 308 PGQPACGNFRSYGFCKFGTNCKFDHPM 334
                          57899********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003562.1E-54774IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.3524775IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-84973IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-55174IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.0E-45373IPR000571Zinc finger, CCCH-type
SMARTSM003569.1E-690117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.39990118IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-994117IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.45E-695118IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.1E-496116IPR000571Zinc finger, CCCH-type
SMARTSM003565.6E-6135162IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.81E-7135164IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.939135163IPR000571Zinc finger, CCCH-type
PfamPF006423.0E-10137162IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.4E-6139162IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.037261289IPR000571Zinc finger, CCCH-type
SMARTSM003561.0E-6262288IPR000571Zinc finger, CCCH-type
PfamPF006424.5E-10264287IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.35E-6265287IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.4E-6267287IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-5303333IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-4307334IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.488307335IPR000571Zinc finger, CCCH-type
PfamPF006424.5E-7309334IPR000571Zinc 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 MKVNENGVEE SNPYPDRPGE RDCQFYLRTG  60
LCGYGSSCRY NHPTHLPQDV SYHKEELPER IGLPDCEYFL KTGACKYGST CKYHHPKDRN  120
GVQPVMFNAI GLPMRQGEKP CPYYLRTGTC RFGVACKFHH PQPDNGHSTA YGMPSFPSAG  180
LQYASGLTMM STYGTLLRPQ VPQSYVPIMV SPSQGLLPPQ GWAPYMAASN SMYNVKNQPY  240
YSGSSASMAM AVALNRGLSE SSEQPECRFF MNTGTCKYGD DCKYNHSGVR ILQPPPNLIN  300
PFVLPARPGQ PACGNFRSYG FCKFGTNCKF DHPMVPYQGL SMASSLPTPY ASHVSTHQRI  360
SPSPNRSDSK SLSNGKPDVK KESSETEKPD NDSGQLNNSE VQDLSENLSS 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
PlantRegMapAraha.5092s0013.1.p
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]