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.0434s0021.1.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: 419aa    MW: 46061.4 Da    PI: 7.7511
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0434s0021.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH29.21.6e-094671126
                         --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                         ++++ C+++ rtG C++G+ C+F+H+
  Cagra.0434s0021.1.p 46 PGEPDCSYYIRTGLCRFGSICRFNHP 71
                         5789*********************9 PP
2zf-CCCH34.82.8e-1193117327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          +++C f+ +tGtCk+G +CkF+H++
  Cagra.0434s0021.1.p  93 QPECEFYIKTGTCKFGVTCKFHHPR 117
                          799********************96 PP
3zf-CCCH37.93e-12139163327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          +  C++f+rtG+Ck+G++CkF+H++
  Cagra.0434s0021.1.p 139 EDDCSYFLRTGHCKFGGSCKFNHPQ 163
                          578********************97 PP
4zf-CCCH34.63.2e-11289312427
                          ---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                           +C f+++tG Ck+G  CkF+H++
  Cagra.0434s0021.1.p 289 LECEFYMKTGDCKFGTVCKFHHPR 312
                          58********************96 PP
5zf-CCCH38.22.5e-12332358127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          ++++lC f++r+G+Ck+G++CkF H++
  Cagra.0434s0021.1.p 332 PGEPLCVFYSRYGICKFGPSCKFDHPM 358
                          589**********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003569.1E-44572IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.5164573IPR000571Zinc finger, CCCH-type
PfamPF006423.6E-64771IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.4E-55073IPR000571Zinc finger, CCCH-type
SMARTSM003563.4E-490117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.74290118IPR000571Zinc finger, CCCH-type
PfamPF006425.3E-893117IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.41E-694119IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.3E-496117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.662136164IPR000571Zinc finger, CCCH-type
SMARTSM003562.0E-5136163IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-6137164IPR000571Zinc finger, CCCH-type
PfamPF006428.4E-10139163IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-4142162IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.549285313IPR000571Zinc finger, CCCH-type
SMARTSM003564.1E-4285312IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-5289314IPR000571Zinc finger, CCCH-type
PfamPF006428.7E-8290312IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.7E-4291312IPR000571Zinc finger, CCCH-type
SMARTSM003561.4E-7331358IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.234331359IPR000571Zinc finger, CCCH-type
PfamPF006424.5E-9333358IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.7E-5334358IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.4E-4336356IPR000571Zinc 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: 419 aa     Download sequence    Send to blast
MDFDSRVPIS RESISLSPLL HQNAMWQTNL GSDETMGGDG LYPERPGEPD CSYYIRTGLC  60
RFGSICRFNH PYDRKLVIAT ARTKGEYPER IGQPECEFYI KTGTCKFGVT CKFHHPRNKA  120
GIDERVSVNV LGYPLRPNED DCSYFLRTGH CKFGGSCKFN HPQTQSTKLM VSLRSPVYSA  180
LQSLTGQQSY SWPRTSYVAN PPRFQDPSYA SLGGLVSVQG WNAYGGQLGS LSPSGSDQDY  240
RNQQQNNAEE SSGSQGGVFS SGFHSGNSVP LGQYALPSEN VFPERPGQLE CEFYMKTGDC  300
KFGTVCKFHH PRNRQTPAPD CVLSTVGLPL RPGEPLCVFY SRYGICKFGP SCKFDHPMRV  360
FTYNSNAAAP SSSSSLHQET AITTQLRNLL VSSSVEATTP SSVSETTSAK DTTVDAQH*
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.0434s0021.1.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
GenBankAF1388720.0AF138872.1 Arabidopsis thaliana zinc finger protein 3 (ZFN3) mRNA, complete cds.
GenBankAY0846340.0AY084634.1 Arabidopsis thaliana clone 113763 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006287837.10.0zinc finger CCCH domain-containing protein 57 isoform X1
SwissprotQ8L7N80.0C3H57_ARATH; Zinc finger CCCH domain-containing protein 57
TrEMBLR0H7930.0R0H793_9BRAS; Uncharacterized protein
STRINGCagra.0434s0021.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33892864
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G16540.10.0zinc finger nuclease 3
Publications ? help Back to Top
  1. Haas BJ, et al.
    Full-length messenger RNA sequences greatly improve genome annotation.
    Genome Biol., 2002. 3(6): p. RESEARCH0029
    [PMID:12093376]
  2. 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]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Xie W, et al.
    Exploring potential new floral organ morphogenesis genes of Arabidopsis thaliana using systems biology approach.
    Front Plant Sci, 2015. 6: p. 829
    [PMID:26528302]