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 ONIVA02G35500.1
Organism
Oryza nivara
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
Family C3H
Protein Properties Length: 669aa    MW: 72857.8 Da    PI: 6.7427
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA02G35500.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.12.3e-06121141526
                      --SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                      +C+ +   G+C+ G++C++ H+
  ONIVA02G35500.1 121 ECNMYKM-GFCPNGPNCRYKHV 141
                      6666666.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.9576289IPR000571Zinc finger, CCCH-type
SMARTSM003563.6E-56288IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.02E-66387IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.3E-56389IPR000571Zinc finger, CCCH-type
SMARTSM003560.0190116IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.59690115IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.065116143IPR000571Zinc finger, CCCH-type
SMARTSM003560.0031118142IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.9E-4122140IPR000571Zinc finger, CCCH-type
PROSITE profilePS5088257.421264399IPR007275YTH domain
PfamPF041464.8E-44264398IPR007275YTH domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006979Biological Processresponse to oxidative stress
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:1900363Biological Processregulation of mRNA polyadenylation
GO:2000031Biological Processregulation of salicylic acid mediated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003723Molecular FunctionRNA binding
GO:0004521Molecular Functionendoribonuclease activity
GO:0005516Molecular Functioncalmodulin binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 669 aa     Download sequence    Send to blast
MDDGDLSFDF EGGLDQGPAG GGGGPAPHSS DPGGVGGGGV GGGGGGGPGD GGGHGRGRGR  60
GSYRQTVCRH WLRGLCMKGE ACGFLHQFDK ARMPVCRFFR DFGECREPDC AYKHSYDDVK  120
ECNMYKMGFC PNGPNCRYKH VKLPGPPPPV EEVLQKILQI RSFNKFNQHR HNNYNQQGER  180
PQHPQGSGLP NQNSIDNTTT TTAQPAVGQQ AQTTNQQPPQ QQQQQQQQQQ QQQKPNTNDQ  240
VQSVPNGSSN QATRIATPLP QGPSRYFIVK SCNRENLEIS VQQGIWATQR SNEAKLNEAF  300
ESIENVILIF SINRTRNFQG CAKMTSRIGG YIGGGNWKSA HGTAHYGRNF SIQWLKLCEL  360
SFQKTHHLRN PYNDNLPVKI SRDCQELEPF IGEQLASLLY LEPDSELTAI LIAAEAKKEE  420
EKAKGVSADE AADNQDIVLF DDNEEEEEEE SEEEEEGNGQ ESQGRGRGRG MMWPPQMPML  480
RGVGPMMGGR GFPPNMIGDG FSFGGGFGMP DPFGVPRGFP PFGPRFPGDF ARGGPMPGMV  540
FPGRPPQPGG MFPMGLEMMM GPGRGPLMGG LGMGGPGRPN RPVGMAPFMP PPPPPNNRGT  600
KREQRRPGGE RGDRYETTSD QGSRGHDATG NSGAEGARSQ SGDRYGRSAL RDDDSESDEE  660
AAPRRSRKR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zuu_A1e-103249427218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_B1e-103249427218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_C1e-103249427218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_D1e-103249427218030-kDa cleavage and polyadenylation specificity factor 30
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0037280.0AP003728.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0710B08.
GenBankAP0049890.0AP004989.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, BAC clone:B1153E06.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644405.10.0zinc finger CCCH domain-containing protein 45
SwissprotQ0DA500.0C3H45_ORYSJ; Zinc finger CCCH domain-containing protein 45
TrEMBLA0A0E0GD410.0A0A0E0GD41_ORYNI; Uncharacterized protein
STRINGONIVA02G35500.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP59892428