PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.3KG355000.2.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: 288aa    MW: 31343.1 Da    PI: 8.0829
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG355000.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH37.83.2e-12135159327
                          S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                          ++ C+f+ +tG Ck+G++CkF+H++
  Pavir.3KG355000.2.p 135 EPVCSFYVKTGKCKFGAKCKFNHPK 159
                          789********************96 PP
2zf-CCCH37.53.9e-12213238126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ++++ C+f+++tG CkyG+ C+F+H+
  Pavir.3KG355000.2.p 213 PGEVDCSFYMKTGSCKYGSICRFNHP 238
                          57899********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.00980108IPR000571Zinc finger, CCCH-type
SMARTSM003562.380107IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.901132160IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.22E-6132159IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-6132159IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-9135159IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-5137158IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.788212240IPR000571Zinc finger, CCCH-type
SMARTSM003568.7E-6212239IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-9214238IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.06E-5216240IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-4218237IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 288 aa     Download sequence    Send to blast
MFHTLQMPKK QLHFNGSAIS GFFFNFLGYY LVCLSIFGTF WSNHHNVMQL CLLSCNPLND  60
FFFPGLLLQI WNVEDSYPER LGEPDCPYLV KSNRCRLKSK CKFNHSKEKV NALSAGTDNG  120
SLIADSAILP VRPSEPVCSF YVKTGKCKFG AKCKFNHPKD VGIAPVIAKE TIYTATTDAA  180
AHIGTADSSV PAKTLAPTAP AEAHNAKGLP IRPGEVDCSF YMKTGSCKYG SICRFNHPYR  240
PVVDIASMAP LVQATLPTPE PIVSAAVLNP VANITQCFDF SCDSSAD*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.102991e-112callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG355000.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025815023.11e-118zinc finger CCCH domain-containing protein 8-like isoform X3
SwissprotQ5ZDJ65e-77C3H8_ORYSJ; Zinc finger CCCH domain-containing protein 8
TrEMBLA0A3L6SUD31e-127A0A3L6SUD3_PANMI; Zinc finger CCCH domain-containing protein 8-like
STRINGPavir.Ca01257.1.p1e-157(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G12680.11e-50floral homeotic protein (HUA1)
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]
  2. Zhu RS,Xu ZF,Lin MC
    Ab initio studies of alkyl radical reactions: Combination and disproportionation reactions of CH3 with C2H5, and the decomposition of chemically activated C3H8.
    J Chem Phys, 2004. 120(14): p. 6566-73
    [PMID:15267548]