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 ORUFI04G00980.1
Organism
Oryza rufipogon
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: 694aa    MW: 76656.1 Da    PI: 7.2785
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORUFI04G00980.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.22.2e-061121241426
                      --TTTTT-SS-SS CS
          zf-CCCH  14 tCkyGdrCkFaHg 26 
                       CkyGd+C+F+H+
  ORUFI04G00980.1 112 SCKYGDSCRFSHD 124
                      7***********6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.5395126IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.708.9E-75338581IPR013785Aldolase-type TIM barrel
SuperFamilySSF513953.17E-65342653No hitNo description
CDDcd028011.16E-95342577No hitNo description
PfamPF012074.5E-54345579IPR001269tRNA-dihydrouridine synthase
PROSITE patternPS011360426444IPR018517tRNA-dihydrouridine synthase, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0002943Biological ProcesstRNA dihydrouridine synthesis
GO:0055114Biological Processoxidation-reduction process
GO:0017150Molecular FunctiontRNA dihydrouridine synthase activity
GO:0046872Molecular Functionmetal ion binding
GO:0050660Molecular Functionflavin adenine dinucleotide binding
Sequence ? help Back to Top
Protein Sequence    Length: 694 aa     Download sequence    Send to blast
MPPHRAATMA ATAAAAAAAP PADLPDSSPA ASSPPRPSPE ELVARAVAPV KPAFLRPPPV  60
RDAPKDEGKA NGGGAVVAEK KSKRQLKRER KQEQKSSSHL CIEVGKSGNV SSCKYGDSCR  120
FSHDIDAYLA QKPADLEGMC PFTSLDQLCP YGLTCRFLGT HKYIHAASGN LSEKHEINAL  180
NKDIQKLLWK NKYKFPKASA QIKLLGLKEV IKSKPDAAND DKKVNHDNLD GNGDEKKEPL  240
CNPPVNAECD STLCEELDRS EGEPLIDNSI TCVEPRPTKK SKVESDEIDK HGAGTLNTKV  300
ESEDPNLSNG LEVPSNNASS CRTDLITTPH LREKKIIDFR EKLYLAPLTT VGNLPFRRLC  360
KTLGADITCG EMAMCTNLLQ GQASEWALLR RHSSEDLFGV QICGAYPDTV ARTVELVDNE  420
CSVDFIDINM GCPIDIVVNK GAGSSLLTKP MRIKSIVQAA STVTEKPLTV KVRTAFFEGR  480
NRADSIVSDI YDWGASAITV HGRSRQQRYS KLADWDYIYQ CAQKAPDQLH VVGNGDVFSF  540
TDWNKHVSGC SKISTCMIAR GALIKPWIFT EIKEQRHWDI TSGERFNILK DFVSFGLEHW  600
GSDSKGVETT RYFLLEWLSY TCRYIPVGLL DVIPQRLNWR PPSYCGRDDL ETLMISDSAA  660
DWIRISEMLL GKVPEGFTFT PKHKSNAYDR AENG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ei9_A7e-2833957327257tRNA-dihydrouridine synthase B
6ei9_B7e-2833957327257tRNA-dihydrouridine synthase B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtCatalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1116990.0AK111699.1 Oryza sativa Japonica Group cDNA clone:J023009K15, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015635918.10.0LOW QUALITY PROTEIN: tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
SwissprotQ7XT070.0DUS3L_ORYSJ; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBLA0A0D9ZGI30.0A0A0D9ZGI3_9ORYZ; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
TrEMBLA0A0E0P4L90.0A0A0E0P4L9_ORYRU; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRINGOGLUM04G00800.10.0(Oryza glumipatula)
STRINGORUFI04G00980.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP103222527
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]