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 Carubv10000876m
Common NameCARUB_v10000876mg
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: 474aa    MW: 50104.7 Da    PI: 7.2602
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10000876mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH38.12.5e-125479227
                     -S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                     +++ C +++rtG C yG+rC+F+H++
  Carubv10000876m 54 DEPDCIYYLRTGVCGYGSRCRFNHPR 79
                     6899********************96 PP
2zf-CCCH38.81.6e-12100125227
                      -S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                      +++ C++f+rtGtCk+G++Ck++H++
  Carubv10000876m 100 GQPVCQHFMRTGTCKFGASCKYHHPR 125
                      5789********************96 PP
3zf-CCCH39.87.3e-13150174226
                      -S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                      ++++C++f+rtG+Ck+G++C+F+H+
  Carubv10000876m 150 GEKECSYFMRTGQCKFGSTCRFHHP 174
                      7899********************9 PP
4zf-CCCH41.32.6e-13304329227
                      -S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                       +++C++f+rtG Ck+G++C+F+H++
  Carubv10000876m 304 EQPECQYFMRTGDCKFGSSCRFHHPM 329
                      5799********************95 PP
5zf-CCCH30.18.2e-10352374527
                      --SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   5 lCrffartGtCkyGdrCkFaHgp 27 
                       C +fa+ G+Ck+G+ CkF H++
  Carubv10000876m 352 QCTHFAEHGICKFGPACKFDHSM 374
                      5********************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.5E-45279IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.0985280IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-95479IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-65781IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.7E-55879IPR000571Zinc finger, CCCH-type
SMARTSM003562.5E-698125IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.27798126IPR000571Zinc finger, CCCH-type
PfamPF006424.1E-10100125IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.49E-6100125IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.7E-5103125IPR000571Zinc finger, CCCH-type
SMARTSM003561.5E-6148175IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.45148176IPR000571Zinc finger, CCCH-type
PfamPF006422.2E-10150174IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.62E-6151175IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-4154173IPR000571Zinc finger, CCCH-type
SMARTSM003562.2E-6302329IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.798302330IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.35E-6303330IPR000571Zinc finger, CCCH-type
PfamPF006421.5E-10305329IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.0E-5308328IPR000571Zinc finger, CCCH-type
SMARTSM003561.9E-4347374IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.084347375IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-5350375IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-7352373IPR000571Zinc 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: 474 aa     Download sequence    Send to blast
MERYGGAGEE EPRSDPSLEW TAPGNEAGIE ASMWRLGLRG GGGGAADSFP ERPDEPDCIY  60
YLRTGVCGYG SRCRFNHPRN RAPVLGGLRT EAGEFPERMG QPVCQHFMRT GTCKFGASCK  120
YHHPRQGGGR GVDSVTPVTL NYMGFPLRPG EKECSYFMRT GQCKFGSTCR FHHPVPPGVL  180
APSQPQQQLS AGPTMYPSLQ SQSVPSSQQY GVVLARPQLL PGSYVQSPYG YGQMVLPPGM  240
VPYSGWNPYQ ASVSALPSPG TQPSMGTSSV YGITPLSPSA PAYQSGPSST GISNKDQTFP  300
QRPEQPECQY FMRTGDCKFG SSCRFHHPME AASPKDITLS HIGLPLRPGA TQCTHFAEHG  360
ICKFGPACKF DHSMGSSSLS YNTSAASSLT DTPVASYPLG SSSLGTLAPS ASSDQRTEVL  420
SSSSVNPITT TTGGSETVAS EVSPSSTTSC VSHPEPAETS KGDSASTDAK TSS*
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10000876m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2301750.0AK230175.1 Arabidopsis thaliana mRNA for zinc finger like protein, complete cds, clone: RAFL22-89-O03.
GenBankBT0108860.0BT010886.1 Arabidopsis thaliana At5g18550 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006287665.10.0zinc finger CCCH domain-containing protein 58 isoform X1
RefseqXP_023636660.10.0zinc finger CCCH domain-containing protein 58 isoform X1
SwissprotQ6NPN30.0C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBLR0HAE20.0R0HAE2_9BRAS; Uncharacterized protein
STRINGXP_006287665.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17792786
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G18550.10.0C3H 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]