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.6KG030000.1.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: 941aa    MW: 103689 Da    PI: 9.418
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG030000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.63.9e-07210229525
                          --SGGGGTS--TTTTT-SS-S CS
              zf-CCCH   5 lCrffartGtCkyGdrCkFaH 25 
                          +Cr+f + G C++G++C+F H
  Pavir.6KG030000.1.p 210 PCRDFVA-GRCRRGSNCRFLH 229
                          7******.************* PP
2zf-CCCH27.55.4e-09292314326
                          S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                          te C +fa+ G C +G++C+FaHg
  Pavir.6KG030000.1.p 292 TEQCYNFAK-GRCARGASCRFAHG 314
                          899******.*************9 PP
3zf-CCCH23.59.8e-08353372525
                          --SGGGGTS--TTTTT-SS-S CS
              zf-CCCH   5 lCrffartGtCkyGdrCkFaH 25 
                          +C+ffa+ G C++G++C++ H
  Pavir.6KG030000.1.p 353 PCKFFAE-GRCRRGESCPYLH 372
                          8******.************* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.0014206231IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.737210232IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-4210229IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.7E-5210230IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.497289316IPR000571Zinc finger, CCCH-type
SMARTSM003560.002289315IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-6292314IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.9E-6292315IPR000571Zinc finger, CCCH-type
SMARTSM003563.4E-5348374IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.765348375IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.06E-7349373IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.0E-5351374IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-5352372IPR000571Zinc 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: 941 aa     Download sequence    Send to blast
MTGDSRRQRS KWDAKEGSHD IVEISEDESL PDKTIVHRKG GDVHPQPDTS MHHGGAGHEK  60
EQADGFNKDT KELQPKAPSE RSQPLRAADE RDNNEWSKAA GNQGMNRYAD DRRRGDGWGT  120
DRSRGYSSRV PSDTDAWRPH SRSPSPRGVW NRSRRNRSRS RSRSRSRNRS RSRSRSIGRG  180
RGRSRSPYFA DRGSEWRVER GRTSGGPALP CRDFVAGRCR RGSNCRFLHE DGGHKPFEDH  240
YPADPRERFG YQNKEFMDSR EPNDYLRSRQ SRDHYDDGLW EISEPRRDYR STEQCYNFAK  300
GRCARGASCR FAHGDSGSHG GWRDEARESA HDRGGPDSSY GNRTEHRRVN KNPCKFFAEG  360
RCRRGESCPY LHEEAPQSRI GVSAPDEPLN YSDGRSARGN YSNWGEQNNA MHATSQILSR  420
DDRENPVSQS IGRNDSRFEY ESRHSKNAGK SQFQIIPQEA FGSQVENKRE VAVSQQPQLL  480
APVQTTADNM NNVNVPGMGG QNAPATLGDL STQLGIHNAN SLAEQSLGQI LQRHDEIPHI  540
PGPATLPVTT QLQNVTSSFP LNSHVQQNNF PVHQNRQEQF VVPQAAANNS TPSMQGQLVA  600
PHMGHGQHGY GLEPQALPNS AAHNGHNFSA AGQVPQNLPT TVLAGQSQAT VDIPRLSQDS  660
GSQSIQNMQN FQPVAPNMQN QSLQGLPLVP TSSSTDMVGV PVSHNAAKSE EVSRVTASLA  720
QYFGNTAFGA GTGLQSSQPN VNSSLMANSS DVPPSVQPNQ WPWTQQQTGL VQSGLSVPSE  780
QQQQHAPQTF QMPIAVSSSN GNSMLLPHAG APSGPPAAAV AAASVVNETV PPESKKGENK  840
DSDAEAHEDG DNKKSKDSKP LKMFKVALAD FVKEALKPTW KEGQMSREVH KTIVKKVVDK  900
VTSTVENTPP TKEKIEIYMS YSKDKLNKLV QAYVGKYAKA *
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1164174RSRNRSRSRSR
2166174RNRSRSRSR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.167370.0callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6KG030000.1.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_025820462.10.0zinc finger CCCH domain-containing protein 55-like
RefseqXP_025820463.10.0zinc finger CCCH domain-containing protein 55-like
SwissprotQ6YYC00.0C3H55_ORYSJ; Zinc finger CCCH domain-containing protein 55
TrEMBLA0A2S3HZY10.0A0A2S3HZY1_9POAL; Uncharacterized protein
STRINGPavir.Fa02279.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP77663443
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33835.12e-08C3H 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]