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 RrC1437_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: 236aa    MW: 24762.9 Da    PI: 10.0948
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1437_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.68e-073558225
                -S---SGGGGTS--TTTTT-SS-S CS
     zf-CCCH  2 ktelCrffartGtCkyGdrCkFaH 25
                k ++C  f+ t  C++G++C+F H
  RrC1437_p4 35 KSKPCTKFFSTSGCPFGENCHFLH 58
                7789******************** PP
2zf-CCCH33.85.8e-11202227127
                 --S---SGGGGTS--TTTTT-SS-SSS CS
     zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                 +kt+ C +f++ G C +GdrC+FaHg+
  RrC1437_p4 202 FKTKMCERFSK-GSCTFGDRCHFAHGE 227
                 69*********.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.843361IPR000571Zinc finger, CCCH-type
SMARTSM003560.213360IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.62E-63459IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.0E-83558IPR000571Zinc finger, CCCH-type
PfamPF006426.9E-53558IPR000571Zinc finger, CCCH-type
SuperFamilySSF547913.65E-1595176IPR004088K Homology domain, type 1
SMARTSM003224.6E-10105175IPR004087K Homology domain
Gene3DG3DSA:3.30.1370.101.1E-14105174IPR004088K Homology domain, type 1
PROSITE profilePS5008414.508106170IPR004088K Homology domain, type 1
PfamPF000135.6E-11108172IPR004088K Homology domain, type 1
CDDcd001054.70E-12108170No hitNo description
Gene3DG3DSA:4.10.1000.104.7E-16196231IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-8201231IPR000571Zinc finger, CCCH-type
SMARTSM003567.8E-6201227IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.446201228IPR000571Zinc finger, CCCH-type
PfamPF006421.8E-7202227IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 236 aa     Download sequence    Send to blast
MDASRKRGPP EASSNGGGGF KKSKLEMEST GLGSKSKPCT KFFSTSGCPF GENCHFLHYV  60
PGGYNAVAQL TNMAPPMPQV SRNMQGPGGG LGRFSGPGHV SSFGASATAK ISVDASLAGA  120
IIGKGGVSSK QIYRQTGAKL TIQDHERDPN LKNIELEGTF EQINEASVMV RELIGRLNSA  180
ARRPPGGGGI GSEGKPHPGS NFKTKMCERF SKGSCTFGDR CHFAHGEAEL RRSGIS
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00113ampDAPTransfer from AT3G12130Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3535310.0AK353531.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-50-B10.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018491218.11e-159PREDICTED: zinc finger CCCH domain-containing protein 36-like
SwissprotQ9C7C31e-129C3H36_ARATH; Zinc finger CCCH domain-containing protein 36
TrEMBLA0A0D3BAW51e-146A0A0D3BAW5_BRAOL; Uncharacterized protein
TrEMBLA0A3P6ALD01e-146A0A3P6ALD0_BRAOL; Uncharacterized protein
STRINGBo3g064770.11e-146(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM23362875
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G12130.11e-111C3H family protein
Publications ? help Back to Top
  1. Yan Z,Jia J,Yan X,Shi H,Han Y
    Arabidopsis KHZ1 and KHZ2, two novel non-tandem CCCH zinc-finger and K-homolog domain proteins, have redundant roles in the regulation of flowering and senescence.
    Plant Mol. Biol., 2017. 95(6): p. 549-565
    [PMID:29076025]