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 Brast04G232500.1.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: 325aa    MW: 35728.5 Da    PI: 8.2058
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast04G232500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH38.22.4e-12183208126
                         --S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                         y   +C+++ +tG+C yGd+CkF+H+
  Brast04G232500.1.p 183 YQPDICKDYKETGYCGYGDSCKFMHD 208
                         67789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902291.7E-9180213IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.878182210IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-7182209IPR000571Zinc finger, CCCH-type
PfamPF006424.4E-10183208IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.7E-12183213IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.107.1E-14257301IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF578501.71E-13259302No hitNo description
PfamPF139202.1E-8259300No hitNo description
SMARTSM001849.1E-5260297IPR001841Zinc finger, RING-type
PROSITE profilePS5008910.734260298IPR001841Zinc finger, RING-type
CDDcd001622.92E-8260301No hitNo description
PROSITE patternPS005180275284IPR017907Zinc finger, RING-type, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0016020Cellular Componentmembrane
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 325 aa     Download sequence    Send to blast
MSDGGGGEPG AGASAPVCNF VRKPPKNIRK RPAASAGSDD EGGGDDSGAI AAARSKKPPS  60
TTSKLFFSSA ETSSEPRRFQ FESSRTIQSS TDSRATATLE TETAYDRDAR AIRERQLKQA  120
EESLKKNPSA SSSSGEIYKG IHGYTDHKAG FRREHTVSGE KAGGAHGPLR ASAHIRLSTR  180
FDYQPDICKD YKETGYCGYG DSCKFMHDRG DYKSGWQLEK EWDEAEKARK RRIAMRGEDG  240
SDGEAEDDGS DDEEALPFAC YICREPFVDP VVTKCKHYFC EHCALKHHSK NKKCFVCNKP  300
TLGIFNAAQE IRKKMAQDKK QQNL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M9e-641731514317RING finger protein 113A
5z58_M9e-641731514317RING finger protein 113A
6ff4_t9e-641731514317RING finger protein 113A
6ff7_t9e-641731514317RING finger protein 113A
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapBrast04G232500.1.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
GenBankAK3614000.0AK361400.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1139O11.
GenBankAK3711030.0AK371103.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv2125B03.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020156391.10.0zinc finger CCCH domain-containing protein 15
SwissprotQ6K4V31e-167C3H15_ORYSJ; Zinc finger CCCH domain-containing protein 15
TrEMBLF2DBY50.0F2DBY5_HORVV; Predicted protein
STRINGEMT145290.0(Aegilops tauschii)
STRINGTraes_4AS_866E12EE7.10.0(Triticum aestivum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP80713645
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01350.11e-134C3H family protein
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]