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 Brast09G014600.1.p
Organism
Brachypodium stacei
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family C3H
Protein Properties Length: 677aa    MW: 75148 Da    PI: 6.4559
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast09G014600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.12.4e-06881061126
                         GTS...--TTTTT-SS-SS CS
             zf-CCCH  11 rtG...tCkyGdrCkFaHg 26 
                         ++G    CkyG++C+F+H+
  Brast09G014600.1.p  88 KSGnpdACKYGASCRFSHD 106
                         6666668***********6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.17477108IPR000571Zinc finger, CCCH-type
PROSITE profilePS501037.648121146IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.701.1E-74320563IPR013785Aldolase-type TIM barrel
SuperFamilySSF513951.2E-64324637No hitNo description
CDDcd028011.11E-95324556No hitNo description
PfamPF012074.0E-54327592IPR001269tRNA-dihydrouridine synthase
PROSITE patternPS011360408426IPR018517tRNA-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: 677 aa     Download sequence    Send to blast
MADDRPDPCP AAAADSSPPQ PTPEELVARA VAPVKPAFLR PPPVREAPSE ESRAAGAVPL  60
EKKSKRQFKR ERKQEQESVS RLCISVGKSG NPDACKYGAS CRFSHDIDAY LAQKPADLEG  120
TCPFTVQDKL CPYGLNCRFL GTHNDNNSLS ENHEINPLNK DVQKLLWKTK YKFPKASAQI  180
KHLGLKEVIK TKANARTEDR KADHDNLDVS CELNGDDKTE SLSGPPVNVD CDPGLCEEMV  240
KLEGEPLVGN SISCVEPRAS KKSKVEDGGI HKNGAGTHDT TTYSEDSTLV NGLEVPSDDP  300
NSCRVDLVET PHLRERKIID FREKLYLAPL TTVGNLPFRR LCKTLGADIT CGEMAMCTNL  360
MQGQASEWAL LRRHSSEDLF GVQICGAFPD TVARTVELVD NECSFDFIDI NMGCPIDVVV  420
NKGAGSQLLT KPMRIKSIVK ASSAVTERPL TVKVRTAFFE GRNRADSLVS DIYDWGASAI  480
TIHGRSRQQR YSKLADWDYI YQCAQKAPDD LHVIGNGDIF SYTDWNRHVS GCSKISTCMI  540
ARGALIKPWI FTEIKEQKDW DITSGERFNI LKDFARFGLE HWGSDSKGVE TTRHFLLEWL  600
SYTCRYIPVG LLDVVPQRLN WRPPSYCGRD DLETLMASDS AADWVRISEM LLGKVPEGFT  660
FAPKHKSNAY DRAENG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ei9_A4e-2832155927261tRNA-dihydrouridine synthase B
6ei9_B4e-2832155927261tRNA-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
PlantRegMapBrast09G014600.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM3992270.0KM399227.1 Brachypodium distachyon FMN-linked oxidoreductases superfamily protein mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003580470.10.0tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like isoform X1
SwissprotQ7XT070.0DUS3L_ORYSJ; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBLI1IVR60.0I1IVR6_BRADI; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRINGBRADI5G01730.10.0(Brachypodium distachyon)
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]