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 Pavir.1KG152300.2.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family C3H
Protein Properties Length: 328aa    MW: 35672.4 Da    PI: 7.1876
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG152300.2.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-12186211126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          y   +C+++ +tG+C yGd+CkF+H+
  Pavir.1KG152300.2.p 186 YQPDICKDYKETGYCGYGDSCKFMHD 211
                          67789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902291.96E-9184216IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-7185212IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.878185213IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-12186216IPR000571Zinc finger, CCCH-type
PfamPF006424.5E-10186211IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.101.6E-10255301IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF578507.34E-11263302No hitNo description
PfamPF139202.6E-6263301No hitNo description
PROSITE profilePS5008910.306264298IPR001841Zinc finger, RING-type
SMARTSM001841.1E-4264297IPR001841Zinc finger, RING-type
CDDcd001621.24E-6264301No hitNo description
PROSITE patternPS005180279288IPR017907Zinc finger, RING-type, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 328 aa     Download sequence    Send to blast
MADGGAGAGE SGAGAGSAPV CNFVRKPPKN IRKRPAAPAG SDDDDGGGGA LAALRSKKGP  60
SSAGKLVFSS ADASSEPRRF QYESSRTIQS TDSRATATLE TETEFDRDAR AIRERQLKQA  120
EEALKKNPSG ASSASASGEV YKGIHGYTDY KAGFRREHTV ASEKAGGSHG PLRASAHIRL  180
SARFDYQPDI CKDYKETGYC GYGDSCKFMH DRGDYKSGWQ LEKEWEEAEK ARKRRIAMGG  240
GDGSDDEAAD EDDDDDDEAL PFACFICRQP FVDPVVTKCK HYFCEHCALK NKKCFVCNKP  300
TMGIFNAAHE IRKKMAQDKK QQQQHED*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M9e-602031514317RING finger protein 113A
5z58_M9e-602031514317RING finger protein 113A
6ff4_t9e-602031514317RING finger protein 113A
6ff7_t9e-602031514317RING finger protein 113A
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1KG152300.2.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
GenBankBT0415240.0BT041524.1 Zea mays full-length cDNA clone ZM_BFc0009J09 mRNA, complete cds.
GenBankBT0551740.0BT055174.1 Zea mays full-length cDNA clone ZM_BFc0109L02 mRNA, complete cds.
GenBankJX4699760.0JX469976.1 Zea mays subsp. mays clone UT3239 C3H-type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020156391.10.0zinc finger CCCH domain-containing protein 15
SwissprotQ6K4V31e-164C3H15_ORYSJ; Zinc finger CCCH domain-containing protein 15
TrEMBLA0A3L6RSL60.0A0A3L6RSL6_PANMI; Zinc finger CCCH domain-containing protein 15
STRINGPavir.J15436.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01350.11e-111C3H 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]