PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC2860_p1
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: 462aa    MW: 48378.1 Da    PI: 8.0553
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2860_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH37.73.4e-125377327
                S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH  3 telCrffartGtCkyGdrCkFaHgp 27
                ++ C +++rtG C yG+rC+F+H++
  RrC2860_p1 53 EPDCIYYLRTGVCGYGSRCRFNHPR 77
                799********************96 PP
2zf-CCCH36.39.3e-12101125327
                 S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                 ++ C++f+rtGtC++G++Ck++H++
  RrC2860_p1 101 HPVCQHFMRTGTCQFGASCKYHHPR 125
                 789********************96 PP
3zf-CCCH39.41e-12146170226
                 -S---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                 ++++C++++rtG+Ck+G +C+F+H+
  RrC2860_p1 146 GEKECSYYMRTGQCKFGLTCRFNHP 170
                 7899********************9 PP
4zf-CCCH39.97e-13307331226
                 -S---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                 ++++C++f+rtG Ck+G++C+++H+
  RrC2860_p1 307 DQPECQYFMRTGDCKFGSSCRYHHP 331
                 689*********************9 PP
5zf-CCCH32.61.4e-10353378227
                 -S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                 + + C +fa+ G+Ck+G+ CkF H++
  RrC2860_p1 353 GVAQCTHFAQHGICKFGPACKFDHSM 378
                 6788********************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.8825078IPR000571Zinc finger, CCCH-type
SMARTSM003561.7E-45077IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-95377IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.14E-65478IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.0E-55677IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.23498126IPR000571Zinc finger, CCCH-type
SMARTSM003561.6E-598125IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.75E-699125IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-9100125IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.6E-5103125IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.408144172IPR000571Zinc finger, CCCH-type
SMARTSM003567.4E-6144171IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-10146170IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.96E-5146171IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.7E-4150169IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.155305333IPR000571Zinc finger, CCCH-type
SMARTSM003564.8E-6305332IPR000571Zinc finger, CCCH-type
PfamPF006423.6E-10307331IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.4E-6308334IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-4311331IPR000571Zinc finger, CCCH-type
SMARTSM003562.9E-4351378IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.347351379IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-8353377IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-5354379IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.0E-4357378IPR000571Zinc 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: 462 aa     Download sequence    Send to blast
MERYGRAGEE GSRSDPSIQW TSHGVEASMA RLVLSGGVGA GGGGESYPVR SDEPDCIYYL  60
RTGVCGYGSR CRFNHPRDRG AGIGGARGGG GDGALPERMG HPVCQHFMRT GTCQFGASCK  120
YHHPRQGGGS IAPVSLSYLG YPLRPGEKEC SYYMRTGQCK FGLTCRFNHP VPLGVHGQQP  180
QQQPQPQMHS VYPTLQSQSM PSSPQQYGLV LSRPSSLLPG SYLPSHYGPP PPMVMPPGMV  240
TYPSWNPYQA SITAMPSPGT QPSIGSSSVY GMASLSPSGT AYAGAYQSGG PSLTTSTEQQ  300
SFPQRPDQPE CQYFMRTGDC KFGSSCRYHH PLDAAQPKSG VLLSSSGLPL LPGVAQCTHF  360
AQHGICKFGP ACKFDHSMSS SLSYSPSASS LTEIPVAPYP IGSSSLSGAS APVSSSNEPT  420
TEAVTAVVSP PIVSGLSLGK PADTGVDSSS VSGSIEAKTS SN
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_018440489.10.0PREDICTED: zinc finger CCCH domain-containing protein 34-like
SwissprotQ9SQU40.0C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBLM4CAG70.0M4CAG7_BRARP; Uncharacterized protein
STRINGBra001196.1-P0.0(Brassica rapa)
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
AT3G06410.11e-166C3H 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]