PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID LOC_Os06g21390.4
Common NameLOC4340884, MKRN, Os06g0318700, OsJ_21146, P0468A12.33, P0592B08.7
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family C3H
Protein Properties Length: 265aa    MW: 30012.2 Da    PI: 6.8071
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g21390.4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH25.32.6e-084768426
                      ---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  4 elCrffartGtCkyGdrCkFaHg 26
                      ++C+ fa++G C+yG+ C+ +Hg
  LOC_Os06g21390.4 47 PICS-FAAGGNCPYGEECPQMHG 68
                      6788.*****************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.7134370IPR000571Zinc finger, CCCH-type
SMARTSM003560.00124469IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-54768IPR000571Zinc finger, CCCH-type
SuperFamilySSF578502.56E-12100176No hitNo description
Gene3DG3DSA:3.30.40.102.7E-10105171IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001625.55E-4111171No hitNo description
PROSITE profilePS5008912.297112170IPR001841Zinc finger, RING-type
PfamPF000971.2E-7112169IPR018957Zinc finger, C3HC4 RING-type
SMARTSM001842.7E-7112169IPR001841Zinc finger, RING-type
PROSITE patternPS005180136145IPR017907Zinc finger, RING-type, conserved site
PROSITE profilePS5010314.089199228IPR000571Zinc finger, CCCH-type
SMARTSM003560.0047199227IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.6E-4200229IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0016567Biological Processprotein ubiquitination
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
GO:0016874Molecular Functionligase activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0025281anatomypollen
PO:0001015developmental stageK second mitotic division stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 265 aa     Download sequence    Send to blast
MDVLAHSGSK PVWRNDFQHE SVLEDGIDWS ISPTVQNQTT LSPADLPICS FAAGGNCPYG  60
EECPQMHGDL CTTCGKMCLH PYRPDEREEH TKLCEKNHKR LESLKRSQEI ECSVCLDRVL  120
SKPTAAERKF GLLSECDHPF CISCIRNWRN NSPTSGMDVN SALRACPICR KLSYYVIPSV  180
LWYFSKEEKL EIIDNYKAKL KSIDCKYFDF GTGTCPFGSS CFYKHAYRDG RLEEVILRHL  240
DADDGSTVIA KNIRLSDFLS RLHL*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1101106ESLKRS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.263430.0callus| flower| leaf| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379898730.0
Expression AtlasQ5ZA07-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in dry seeds. Increased expression throughout imbibition and germination and when radicle and shoots are emerging. Up-regulated during cell differentiation. {ECO:0000269|PubMed:17870591}.
UniprotTISSUE SPECIFICITY: Expressed in primary roots and leaves. Detected in vascular bundle tissues. {ECO:0000269|PubMed:17870591}.
Functional Description ? help Back to Top
Source Description
UniProtE3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g21390.4
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g21390
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1202500.0AK120250.1 Oryza sativa Japonica Group cDNA clone:J013045F22, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015643585.10.0PREDICTED: E3 ubiquitin-protein ligase makorin
SwissprotQ5ZA070.0C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A0E0HPT90.0A0A0E0HPT9_ORYNI; Uncharacterized protein
TrEMBLA0A0E0PX270.0A0A0E0PX27_ORYRU; Uncharacterized protein
STRINGLOC_Os06g21390.10.0(Oryza sativa Japonica Group)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-125C3H family protein
Publications ? help Back to Top
  1. Arumugam TU,Davies E,Morita EH,Abe S
    Sequence, expression and tissue localization of a gene encoding a makorin RING zinc-finger protein in germinating rice (Oryza sativa L. ssp. Japonica) seeds.
    Plant Physiol. Biochem., 2007 Oct-Nov. 45(10-11): p. 767-80
    [PMID:17870591]
  2. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]