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.3KG125600.1.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: 592aa    MW: 62706.1 Da    PI: 8.2941
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG125600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH27.74.5e-09257278526
                          --SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                          +C+ f+++G C+ Gd+C +aHg
  Pavir.3KG125600.1.p 257 PCPEFRKGGACRKGDSCEYAHG 278
                          8********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.25.40.201.2E-842154IPR020683Ankyrin repeat-containing domain
PROSITE profilePS5029712.35571141IPR020683Ankyrin repeat-containing domain
SMARTSM0024873071101IPR002110Ankyrin repeat
SuperFamilySSF484032.05E-672146IPR020683Ankyrin repeat-containing domain
SMARTSM002480.15106138IPR002110Ankyrin repeat
PROSITE profilePS5008810.579106141IPR002110Ankyrin repeat
PROSITE profilePS5010313.31252280IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.54E-5252282IPR000571Zinc finger, CCCH-type
SMARTSM003565.4E-6252279IPR000571Zinc finger, CCCH-type
PfamPF006421.8E-6257278IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.6E-5257280IPR000571Zinc finger, CCCH-type
PROSITE profilePS501036.643288312IPR000571Zinc finger, CCCH-type
SMARTSM0035689288311IPR000571Zinc 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: 592 aa     Download sequence    Send to blast
MCSGPRKPST PPLPAATPKD SAVMAALLLE LAAADDVVAF RRAVEEDKVS ALDAACQWYG  60
PSAAGARLRL ELRTPAMVAA LYGSTAVLAY VLSTAPAEAA RASPTDGATP LHLAAAGGAA  120
GAVAAAHLLL ASGASADALA FSGLRAGDLL PRANAAAERD RALRVLLKSP AVSPSSSPKK  180
SASPPPAPEP RKEYPPDLTL PDLKSGLFST DEFRMYSFKV KPCSRAYSHD WTECPFVHPG  240
ENARRRDPRR YSYSCVPCPE FRKGGACRKG DSCEYAHGVF ECWLHPAQYR TRLCKDEVGC  300
ARRICFFAHK PEELRAVNPS AVSVGMQPAV SSPRSSPPNG LDMGMLNPAW PSSPASRLKT  360
ALAGRELDFD LELLALDQYQ QHKLFDKVSS PRASWGSAGG IGSPLPAAAP ARTVPDYTDL  420
LGSVDPAMLS QLHALSLKQA GDMPAYSSMA DNQLHMPTSP MVSANTAFGL DHSMAKAIMS  480
SRASAFAKRS QSFIDRGGRA PATRSLMSQA TTGAPSMLSD WGSPDGRLDW GVQGDELHKF  540
RKSASFAFRG QSPAPVAAPT EPDVSWVNSL VKDGHAGDIF AQWPEQEQMV A*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.111230.0root
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG125600.1.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
GenBankFP0969790.0FP096979.1 Phyllostachys edulis cDNA clone: bphyem206f17, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025807185.10.0zinc finger CCCH domain-containing protein 33-like
SwissprotQ688R30.0C3H33_ORYSJ; Zinc finger CCCH domain-containing protein 33
TrEMBLA0A3L6RCM20.0A0A3L6RCM2_PANMI; Zinc finger CCCH domain-containing protein 33
STRINGSi021557m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP60132133
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G58620.11e-110C3H 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]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]