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 RrC2343_p6
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: 515aa    MW: 57996.2 Da    PI: 9.9405
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2343_p6genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.38.3e-114873126
                --S---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                ++++ C++++rtG C yG++C+++H+
  RrC2343_p6 48 PGERDCQYYLRTGLCGYGSSCRYNHP 73
                5789*********************9 PP
2zf-CCCH36.11.1e-1193117327
                 S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                 ++ C +f++tG CkyG++Ck++H++
  RrC2343_p6  93 QPDCEYFLKTGACKYGSTCKYHHPK 117
                 789********************96 PP
3zf-CCCH37.83.2e-12137162227
                 -S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                 ++++C++++rtGtC++G +C+F+H++
  RrC2343_p6 137 GEKPCPYYLRTGTCRFGVSCRFHHPQ 162
                 689*********************97 PP
4zf-CCCH253.3e-08229253327
                 S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                 ++ C++   +G+Ck+G+ C+F H++
  RrC2343_p6 229 QPACNNVKSYGFCKFGPDCNFDHSM 253
                 789********************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003562.2E-54774IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.7184775IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-54974IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-84973IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-45372IPR000571Zinc finger, CCCH-type
SMARTSM003563.3E-690117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.89690118IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-993117IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.41E-694118IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.7E-496116IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.46E-7134164IPR000571Zinc finger, CCCH-type
SMARTSM003564.4E-6135162IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.333135163IPR000571Zinc finger, CCCH-type
PfamPF006426.7E-10137162IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.9E-6139162IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.563226254IPR000571Zinc finger, CCCH-type
SMARTSM003560.048227253IPR000571Zinc finger, CCCH-type
PfamPF006424.0E-6229252IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.8E-4232252IPR000571Zinc 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: 515 aa     Download sequence    Send to blast
MPQHMSDTHH VQGSAVSIQS SDKIEDAFKK MKVDEKKVLK SNVYPVRPGE RDCQYYLRTG  60
LCGYGSSCRY NHPTPLPQCI MYHNEGLPQR IGQPDCEYFL KTGACKYGST CKYHHPKDRN  120
GAEPVLFNVL SLPMRQGEKP CPYYLRTGTC RFGVSCRFHH PQPDNGLSTS AYGTSSFPSA  180
GVHYAGGLTM MSTYGALPRP QLPQSYVPLM VSPSQGLLPP QSWATYMGQP ACNNVKSYGF  240
CKFGPDCNFD HSMLPYPGLT IPYVSPVSSN YQRSSPSPSR SALKALSNDK PDVKKEMSET  300
DKPDQYLNQH RRVNSLHQAM NRLRGRGAWI LGSAAMPHLK KRAQNSLVAI QDSYLSTKDL  360
LERQRVVFTV ATSVASVATA WIGYSLRHYN ETRIDQRLES IENAMKHTHE LERGELKELV  420
DPVGSRFTST IAMAGTTLII GYGLGWRGGI WYANRKFKRE QMRLAGQLKP REWKLLLGRI  480
KPRAWPTSRL LRRPFPRQNK TTTENDLKTP PENAA
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_018466518.10.0PREDICTED: zinc finger CCCH domain-containing protein 3-like
SwissprotQ94AD91e-147C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBLA0A1P8AWC31e-148A0A1P8AWC3_ARATH; Zinc finger C-x8-C-x5-C-x3-H type family protein
STRINGAl_scaffold_0001_4291e-148(Arabidopsis lyrata)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G04990.21e-133C3H 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]