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 KN540169.1_FGP001
Organism
Oryza longistaminata
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: 641aa    MW: 71443.1 Da    PI: 7.6694
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN540169.1_FGP001genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.32e-0659711426
                       --TTTTT-SS-SS CS
            zf-CCCH 14 tCkyGdrCkFaHg 26
                        CkyGd+C+F+H+
  KN540169.1_FGP001 59 SCKYGDSCRFSHD 71
                       7***********6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.534273IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.707.5E-75285528IPR013785Aldolase-type TIM barrel
CDDcd028013.28E-96289524No hitNo description
SuperFamilySSF513952.63E-65289600No hitNo description
PfamPF012073.8E-54292526IPR001269tRNA-dihydrouridine synthase
PROSITE patternPS011360373391IPR018517tRNA-dihydrouridine synthase, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008033Biological ProcesstRNA processing
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: 641 aa     Download sequence    Send to blast
MRARPTAAAR SSRRRSPSAS SSGSASRTKK YILKIPKIHE QKSSSHLCIE VGKSGNVSSC  60
KYGDSCRFSH DIDAYLAQKP ADLEGMCPFT SLDQLCPYGL TCRFLGTHKD IHAASGNLSE  120
KHEINALNKD IQKLLWKNKY KFPKASAQIK LLGLKEVIKS KPDAANDDKK VNHDNLDGNG  180
DEKKEPLCNP PVNAECDSTL CEELDRSEGE PLIDNSITCV EPRPTKKSKV ESDEIDKHGA  240
GTLNTKVESE DPNLSNGLEV PSNNASSCRT DLITTPHLRE KKIIDFREKL YLAPLTTVGN  300
LPFRRLCKTL GADITCGEMA MCTNLLQGQA SEWALLRRHS SEDLFGVQIC GAYPDTVART  360
VELVDNECSV DFIDINMGCP IDIVVNKGAG SSLLTKPMRI KSIVQAASTV TEKPLTVKVR  420
TAFFEGRNRA DSIVSDIYDW GASAITVHGR SRQQRYSKLA DWDYIYQCAQ KAPDQLHVVG  480
NGDVFSFTDW NKHVSGCSKI STCMIARGAL IKPWIFTEIK EQRHWDITSG ERFNILKDFV  540
SFGLEHWGSD SKGVETTRYF LLEWLSYTCR YIPVGLLDVI PQRLNWRPPS YCGRDDLETL  600
MISDSAADWI RISEMLLGKV PEGFTFTPKH KSNAYDRAEN G
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ei9_A5e-2828652027257tRNA-dihydrouridine synthase B
6ei9_B5e-2828652027257tRNA-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN540169.1_FGP001
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]