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 XP_009119217.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C3H
Protein Properties Length: 406aa    MW: 45057.9 Da    PI: 8.6391
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009119217.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH35.51.7e-114873126
                    --S---SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                    ++++ C+f++rtG C yG++C+F+H+
  XP_009119217.1 48 PGERDCQFYLRTGLCGYGSTCRFNHP 73
                    5789*********************9 PP
2zf-CCCH36.67.6e-1292116327
                     S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                     ++ C ++++tG CkyG++Ck++H++
  XP_009119217.1  92 QPDCEYYLKTGACKYGSTCKYHHPK 116
                     789********************96 PP
3zf-CCCH38.51.9e-12136161227
                     -S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                     ++++C++++rtGtC++G  CkF+H++
  XP_009119217.1 136 GEKPCPYYLRTGTCRFGVACKFHHPQ 161
                     689*********************97 PP
4zf-CCCH29.11.7e-09268289526
                     --SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                      Crff+ tGtCkyGd Ck+ H+
  XP_009119217.1 268 QCRFFMNTGTCKYGDHCKYTHV 289
                     5******************995 PP
5zf-CCCH27.17.3e-09312337126
                     --S---SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                     ++++ C  f  +G+Ck+G++C+F H+
  XP_009119217.1 312 PGQPACGSFKSFGFCKFGPNCNFDHS 337
                     57899********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003562.7E-54774IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.0614775IPR000571Zinc finger, CCCH-type
PfamPF006426.0E-94973IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.72E-65175IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-45372IPR000571Zinc finger, CCCH-type
SMARTSM003565.1E-689116IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.80289117IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-992116IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.84E-694117IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.4E-495115IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.29E-7133163IPR000571Zinc finger, CCCH-type
SMARTSM003565.6E-6134161IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.939134162IPR000571Zinc finger, CCCH-type
PfamPF006423.0E-10136161IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.2E-6138161IPR000571Zinc finger, CCCH-type
SMARTSM003562.8E-5263290IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.084263291IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.09E-6266289IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-7267289IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.0E-6269288IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.72E-5307337IPR000571Zinc finger, CCCH-type
SMARTSM003564.8E-4311338IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.084311339IPR000571Zinc finger, CCCH-type
PfamPF006428.6E-7313337IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.2E-4317337IPR000571Zinc 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: 406 aa     Download sequence    Send to blast
MRLMSDTHHV QSSTGSVRSS QKIEDAFRKM KVNDGNGVEQ PDPYPDRPGE RDCQFYLRTG  60
LCGYGSTCRF NHPTNLPQVM YYNEELPERI GQPDCEYYLK TGACKYGSTC KYHHPKDRNG  120
AEPVLFNVLN LPMRQGEKPC PYYLRTGTCR FGVACKFHHP QPDNGHSTAA AYGMPTFTSA  180
GLHHAGGLTM VPTYGTLPRP QLPQSYVMVS SSQGLMPPQS WATYMGASNS MYGVVKNQVY  240
YPGSSAPMHM GVTLNGVDLS ERSEQQQQCR FFMNTGTCKY GDHCKYTHVS VRVSPPPPPP  300
NFMNPFVLPA RPGQPACGSF KSFGFCKFGP NCNFDHSVLP YPTGLPMPSS LPNPYPSHVP  360
SNYQRISPTP SRSGSKAMHN DKPDVKKEMP GTEKPEQVQD LSSPRS
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
PlantRegMapXP_009119217.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009119217.10.0PREDICTED: zinc finger CCCH domain-containing protein 3
SwissprotQ94AD90.0C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBLM4DFV30.0M4DFV3_BRARP; Uncharacterized protein
STRINGBra015376.1-P0.0(Brassica rapa)
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]