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 RrC6694_p4
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C3H
Protein Properties Length: 404aa    MW: 44846.5 Da    PI: 8.4541
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC6694_p4genomeMSUView 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+
  RrC6694_p4 46 PGERDCQFYLRTGLCGYGSSCRYNHP 71
                5789*********************9 PP
2zf-CCCH36.67.5e-1290114327
                 S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                 ++ C ++++tG CkyG++Ck++H++
  RrC6694_p4  90 QPDCEYYLKTGACKYGSTCKYHHPK 114
                 789********************96 PP
3zf-CCCH38.51.9e-12134159227
                 -S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                 ++++C++++rtGtC++G  CkF+H++
  RrC6694_p4 134 GEKPCQYYLRTGTCRFGVACKFHHPQ 159
                 689*********************97 PP
4zf-CCCH26.61e-08266286525
                 --SGGGGTS--TTTTT-SS-S CS
     zf-CCCH   5 lCrffartGtCkyGdrCkFaH 25 
                  Crff+ tGtCkyG+ Ck+ H
  RrC6694_p4 266 QCRFFMNTGTCKYGEHCKYTH 286
                 5******************88 PP
5zf-CCCH277.5e-09310335126
                 --S---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                 ++++ C  f  +G+Ck+G++C+F H+
  RrC6694_p4 310 PGQPACASFKSYGICKFGPNCNFDHS 335
                 57899********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.3614573IPR000571Zinc finger, CCCH-type
SMARTSM003562.1E-54572IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-84771IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.77E-64973IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-45170IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.80287115IPR000571Zinc finger, CCCH-type
SMARTSM003565.1E-687114IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-990114IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.71E-692115IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.3E-493113IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.98E-7131161IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.741132160IPR000571Zinc finger, CCCH-type
SMARTSM003567.2E-6132159IPR000571Zinc finger, CCCH-type
PfamPF006423.7E-10134159IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.7E-6136159IPR000571Zinc finger, CCCH-type
SMARTSM003560.0021261288IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.573261289IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.8E-6264286IPR000571Zinc finger, CCCH-type
PfamPF006428.3E-7265286IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.8E-5267286IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.62E-5305335IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.972309337IPR000571Zinc finger, CCCH-type
SMARTSM003562.4E-4309336IPR000571Zinc finger, CCCH-type
PfamPF006424.2E-7311335IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.5E-4315335IPR000571Zinc 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: 404 aa     Download sequence    Send to blast
MRPMSDTHNV QSSTGSIRSS QKIEDAFRKM KVNNEKGESD PYPDRPGERD CQFYLRTGLC  60
GYGSSCRYNH PTNLPQVMYY NEELPERIGQ PDCEYYLKTG ACKYGSTCKY HHPKDRNGAE  120
PILFNVLNLP MRQGEKPCQY YLRTGTCRFG VACKFHHPQP DNGHSTAAYP MSTFPSPGLH  180
HAGGLAMMSA YGTLPRPQLT QTYVPVMVTP SQGLLPPQSW ATYMGASNNS MYGVKNQVYY  240
SGSSGPMPMA VALNGDLSER SEQQQQCRFF MNTGTCKYGE HCKYTHLGVR VSPPQPLPNF  300
INPFVLPARP GQPACASFKS YGICKFGPNC NFDHSVLPYP PTGLPMPSSL PSPYPSHVSS  360
NYQRISPSPS RTGSKAMHDD KPGVKKKMSG TETQDDDSEQ VHDS
Functional Description ? help Back to Top
Source Description
UniProtPossesses RNA-binding and ribonuclease activities in vitro. {ECO:0000269|PubMed:18582464}.
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_018440907.10.0PREDICTED: zinc finger CCCH domain-containing protein 3
SwissprotQ94AD90.0C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBLA0A078IVE10.0A0A078IVE1_BRANA; BnaAnng12470D protein
STRINGBo5g005120.10.0(Brassica oleracea)
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]