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 Cagra.1671s0119.1.p
Organism
Capsella grandiflora
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: 410aa    MW: 45112.6 Da    PI: 7.7616
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.1671s0119.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.76.2e-114974126
                         --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                         ++++ C+f++rtG C yG++C+++H+
  Cagra.1671s0119.1.p 49 PGERDCQFYLRTGLCGYGSSCRYNHP 74
                         5789*********************9 PP
2zf-CCCH36.58e-1294118327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          ++ C +f++tG CkyG++Ck++H++
  Cagra.1671s0119.1.p  94 QPDCEYFLKTGACKYGSTCKYHHPK 118
                          789********************96 PP
3zf-CCCH37.24.8e-12140163427
                          ---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                          ++C++++rtGtC++G  CkF+H++
  Cagra.1671s0119.1.p 140 KPCPYYLRTGTCRFGVACKFHHPQ 163
                          69********************97 PP
4zf-CCCH39.96.8e-13265288326
                          S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                          +++Crff+ tGtCkyGd Ck++H+
  Cagra.1671s0119.1.p 265 QPECRFFMNTGTCKYGDDCKYNHP 288
                          799********************8 PP
5zf-CCCH26.41.2e-08309333125
                          --S---SGGGGTS--TTTTT-SS-S CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaH 25 
                          ++++ C +f+ +G+Ck+G++CkF H
  Cagra.1671s0119.1.p 309 PGQPACGNFRSYGFCKFGPNCKFDH 333
                          57899******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.3614876IPR000571Zinc finger, CCCH-type
SMARTSM003562.1E-54875IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-85074IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.05E-55276IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-45473IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.89691119IPR000571Zinc finger, CCCH-type
SMARTSM003563.3E-691118IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-994118IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.97E-696119IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.1E-497117IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-5136163IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.469136164IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.01E-6137164IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-5140162IPR000571Zinc finger, CCCH-type
PfamPF006427.7E-10140163IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.601262290IPR000571Zinc finger, CCCH-type
SMARTSM003568.4E-7263289IPR000571Zinc finger, CCCH-type
PfamPF006422.3E-10265288IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-6266288IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.9E-5268287IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-5304334IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.99308336IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-4308335IPR000571Zinc finger, CCCH-type
PfamPF006428.1E-7310333IPR000571Zinc 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: 410 aa     Download sequence    Send to blast
MRPMSSDETQ HLQSSLVSIP SSDNLQDAFT KLKVNDNGVA ESKPYPDRPG ERDCQFYLRT  60
GLCGYGSSCR YNHPTNLPQG VAYYKEELPE RIGQPDCEYF LKTGACKYGS TCKYHHPKDR  120
NGAEPVLFNV IGLPMRKGAK PCPYYLRTGT CRFGVACKFH HPQLDNGHST AYEMPSFPST  180
GLQYASGLTM MSTYGTLPRQ QVPQSYVPIM IPPSQGLLPP QGWGTYMAAS NPMYNVKNQP  240
YYSGSSASVP VAVQLNPGSP ESSDQPECRF FMNTGTCKYG DDCKYNHPGV RMSPPLPSLI  300
NPFVLPARPG QPACGNFRSY GFCKFGPNCK FDHQMLPYPG LSMPSSLATP YASPVSTHER  360
ISSRSDSKSL SNGKPDVKKQ SSETDKPDYD SEQLDNSEVH DLSENSSST*
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
PlantRegMapCagra.1671s0119.1.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_023632804.10.0zinc finger CCCH domain-containing protein 3
SwissprotQ94AD90.0C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBLR0IT740.0R0IT74_9BRAS; Uncharacterized protein
STRINGCagra.1671s0119.1.p0.0(Capsella grandiflora)
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]