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.2NG544400.1.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: 668aa    MW: 70937.6 Da    PI: 7.0548
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG544400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH24.93.6e-08279301426
                          ---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                          ++C++f+r G C+ Gd+C F+Hg
  Pavir.2NG544400.1.p 279 VPCPNFRRPGGCPSGDSCEFSHG 301
                          79********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF484032.49E-1467148IPR020683Ankyrin repeat-containing domain
PfamPF127961.3E-967137IPR020683Ankyrin repeat-containing domain
Gene3DG3DSA:1.25.40.206.3E-1669149IPR020683Ankyrin repeat-containing domain
SMARTSM002480.370100IPR002110Ankyrin repeat
PROSITE profilePS500888.7367094IPR002110Ankyrin repeat
PROSITE profilePS5029717.05170145IPR020683Ankyrin repeat-containing domain
CDDcd002043.12E-1372148No hitNo description
SMARTSM002480.0071105137IPR002110Ankyrin repeat
PROSITE profilePS5008812.422105140IPR002110Ankyrin repeat
SMARTSM003565.6E-4275302IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.995275303IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.75E-5276304IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.3E-6279302IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-6279301IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.6E-4307340IPR000571Zinc finger, CCCH-type
SMARTSM0035621311334IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 668 aa     Download sequence    Send to blast
MGDLADLACA GEAARSHLAG GGRRDLLAEL LELAAADDAA GFREKLAAAG GDAELADGVG  60
LWYGRSKAYE PRTPLMVAAT YGSAEVVSLL LGLGCVDVNR RPGVDGATPL HCAASGGSPN  120
AVAIVKVLLA AGADPVTPDA AGRFPADVIL APPASPDGLG DLEMLLGRRR GLAVATLVPS  180
GSSSPPLSSS PDEGNRSPSS RSSSLSPITV DRAKKEYPVD PTLPDIKSSV YASDEFRMFA  240
FKVRPCSRAY SHDWTECPFV HPGENARRRD PRKHPYTAVP CPNFRRPGGC PSGDSCEFSH  300
GVFESWLHPS QYRTRLCKEG AACARRICFF AHDEDELRHV PHNSGAGLLS PRASSSIDMT  360
AAAALGLLPG SPTRHFVPPP LSPSAANNGG GAAAHWLQGS RLRSSFNARD AQTDDIGTLL  420
EWESQYLGAL SRSQPRLSSG LSIRPTAIAP SNLEEMYASD MAMSPRFTND QSHSVYSPAH  480
KSALLNKFHQ QKGLLSPVNT NRMYSPRGLD PSIIHSPFGG MSPRSPRTME PTSPLSARVG  540
ATGTQRDMFD HFSSVNKHQL PSVGSPRNRN ASWGNIGTPK SKVDWGVDNE ELVRLRHPAQ  600
PGAAEEEPDV SWVQSLVNNA ELNGKRGEMA GVASGPMGRP DLSSQGDLVD QTMIASLLEQ  660
QMHLEPK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5elk_A6e-1124133414118RING finger protein unkempt homolog
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.234230.0leaf
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG544400.1.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
GenBankBT0543660.0BT054366.1 Zea mays full-length cDNA clone ZM_BFc0002O06 mRNA, complete cds.
GenBankBT0544470.0BT054447.1 Zea mays full-length cDNA clone ZM_BFc0063F04 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025801940.10.0zinc finger CCCH domain-containing protein 50-like
SwissprotQ84SL20.0C3H50_ORYSJ; Zinc finger CCCH domain-containing protein 50
TrEMBLA0A2S3H3Q80.0A0A2S3H3Q8_9POAL; Uncharacterized protein
STRINGPavir.Ba00634.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP82337126
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G41900.11e-145CCCH-type zinc finger protein with ARM repeat domain
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]