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 Carubv10009335m
Common NameCARUB_v10009335mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C3H
Protein Properties Length: 403aa    MW: 44393.7 Da    PI: 7.4304
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10009335mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.76.1e-114671126
                     --S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                     ++++ C+f++rtG C yG++C+++H+
  Carubv10009335m 46 PGERDCQFYLRTGLCGYGSSCRYNHP 71
                     5789*********************9 PP
2zf-CCCH246.7e-08951111127
                      GTS--TTTTT-SS-SSS CS
          zf-CCCH  11 rtGtCkyGdrCkFaHgp 27 
                      +tG CkyG++Ck++H++
  Carubv10009335m  95 ETGACKYGSTCKYHHPK 111
                      79*************96 PP
3zf-CCCH34.63.2e-11133155426
                      ---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                      ++C++++rtGtC++G  CkF+H+
  Carubv10009335m 133 KPCPYYLRTGTCRFGVACKFHHP 155
                      69********************8 PP
4zf-CCCH40.25.7e-13258282327
                      S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                      +++Crff+ tGtCkyGd Ck++H++
  Carubv10009335m 258 QPECRFFMNTGTCKYGDDCKYNHPR 282
                      689********************96 PP
5zf-CCCH28.91.9e-09302328127
                      --S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                      ++++ C +f+ +G+Ck+G++CkF H++
  Carubv10009335m 302 PGQPACGNFRSYGFCKFGPNCKFDHPM 328
                      57899********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003562.1E-54572IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.3614573IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-84771IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.03E-54973IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-45170IPR000571Zinc finger, CCCH-type
SMARTSM003560.5288111IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.5495112IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-495111IPR000571Zinc finger, CCCH-type
SMARTSM003561.5E-5129156IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.216129157IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.58E-6130156IPR000571Zinc finger, CCCH-type
PfamPF006424.9E-9133155IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-5133154IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.807255283IPR000571Zinc finger, CCCH-type
SMARTSM003561.6E-5255282IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-10258282IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-6259282IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.8E-6261281IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.96E-5297327IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.892301329IPR000571Zinc finger, CCCH-type
SMARTSM003563.1E-5301328IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-7303328IPR000571Zinc 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: 403 aa     Download sequence    Send to blast
MSSDETQHLQ SSLVSIPSSD NLQDAFTKLK VNDNDVAESK PYPDRPGERD CQFYLRTGLC  60
GYGSSCRYNH PTNLPQGVAY YKEELPERIG QPDCETGACK YGSTCKYHHP KDRNGAEPVL  120
FNVIGLPMRK GAKPCPYYLR TGTCRFGVAC KFHHPHLDNG HSTAYEMPSF PSTGLQYASG  180
LTMMSTYGTL PRQQVPQSYV PIMIPPSQGL LPPQGWGTYM AASNPMYNVK NQHYYSGSSA  240
SVPVAVQLNP GLPESCDQPE CRFFMNTGTC KYGDDCKYNH PRVRMSPPLP SLINPFVLPA  300
RPGQPACGNF RSYGFCKFGP NCKFDHPMLP YPGLSMPSSL ATPYASPVST HERISSRSDS  360
KSLSNGKPDV KKQSSETDKP DYDSEQLDNS EVHDLSENSS ST*
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
PlantRegMapCarubv10009335m
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_023632804.10.0zinc finger CCCH domain-containing protein 3
SwissprotQ94AD90.0C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBLR0IT740.0R0IT74_9BRAS; Uncharacterized protein
STRINGXP_006307705.10.0(Capsella rubella)
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]