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.1KG020700.1.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 C2H2
Protein Properties Length: 870aa    MW: 98182.9 Da    PI: 8.067
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG020700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2130.0003557579123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          ++C  Cg +F  + +Lk+H+++H
  Pavir.1KG020700.1.p 557 HRCLECGACFQKPAHLKQHMQSH 579
                          79*******************99 PP
2zf-C2H220.41.3e-06585609123
                          EEET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                          + C+  dC+ s++rk++L+rH+ +H
  Pavir.1KG020700.1.p 585 FICQleDCPFSYKRKDHLNRHMLKH 609
                          789999*****************99 PP
3zf-C2H213.10.00029614639123
                          EEET..TTTEEESSHHHHHHHHHH.T CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                          ++C+   C+++Fs k n++rH +  H
  Pavir.1KG020700.1.p 614 FSCTvdGCDRRFSIKANMQRHVKEfH 639
                          899999****************9988 PP
4zf-C2H215.26.1e-05658682123
                          EEET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                          + C+   C+k F+  s Lk+H  +H
  Pavir.1KG020700.1.p 658 FICKeeGCNKAFKYLSKLKKHEESH 682
                          789999***************9988 PP
5zf-C2H218.26.7e-06749773223
                          EET..TTTEEESSHHHHHHHHHH.T CS
              zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                          kC+   C++sFs+ksnL++H +  H
  Pavir.1KG020700.1.p 749 KCTfdGCDRSFSSKSNLTKHKKAcH 773
                          799999***************9955 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.25.40.101.8E-728163IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS513755.2613565IPR002885Pentatricopeptide repeat
PROSITE profilePS513759.06566100IPR002885Pentatricopeptide repeat
PfamPF015350.466897IPR002885Pentatricopeptide repeat
PROSITE profilePS513758.046136166IPR002885Pentatricopeptide repeat
PfamPF015350.0022141163IPR002885Pentatricopeptide repeat
PROSITE profilePS513759.832167201IPR002885Pentatricopeptide repeat
PfamPF015350.017169197IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007561.4E-4200233IPR002885Pentatricopeptide repeat
PfamPF015354.2E-4200229IPR002885Pentatricopeptide repeat
PROSITE profilePS513756.434202232IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.101.8E-7261335IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS513758.605268298IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007560.0011273298IPR002885Pentatricopeptide repeat
PfamPF130416.6E-11298346IPR002885Pentatricopeptide repeat
PROSITE profilePS5137512.09299333IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007563.5E-7301335IPR002885Pentatricopeptide repeat
PROSITE profilePS513759.021334364IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007560.001336369IPR002885Pentatricopeptide repeat
PROSITE profilePS513756.774370400IPR002885Pentatricopeptide repeat
PfamPF015350.05373397IPR002885Pentatricopeptide repeat
PROSITE profilePS513755.196402432IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.101.8E-7403464IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS513757.158436470IPR002885Pentatricopeptide repeat
SMARTSM0035531511533IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.2E-4554576IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.591557584IPR007087Zinc finger, C2H2
SMARTSM003550.04557579IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280559579IPR007087Zinc finger, C2H2
SuperFamilySSF576671.49E-10569611No hitNo description
Gene3DG3DSA:3.30.160.606.6E-11577611IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003559.8E-4585609IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.078585614IPR007087Zinc finger, C2H2
PROSITE patternPS000280587609IPR007087Zinc finger, C2H2
SuperFamilySSF576672.15E-7595646No hitNo description
Gene3DG3DSA:3.30.160.605.9E-8612640IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0036614639IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.762614644IPR007087Zinc finger, C2H2
PROSITE patternPS000280616639IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.609.7E-7654682IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0087658682IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.201658682IPR007087Zinc finger, C2H2
PROSITE patternPS000280660682IPR007087Zinc finger, C2H2
SMARTSM003558.2690715IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280692715IPR007087Zinc finger, C2H2
SMARTSM0035513718739IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.9E-6733770IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.99E-8733790No hitNo description
PROSITE profilePS5015711.177748778IPR007087Zinc finger, C2H2
SMARTSM003556.0E-4748773IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280750773IPR007087Zinc finger, C2H2
PROSITE profilePS501578.933779805IPR007087Zinc finger, C2H2
SMARTSM003551.3779805IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280781805IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 870 aa     Download sequence    Send to blast
MNRSICHHLL SLCKTLRELQ KLHAQAVAQG LHPRHQSVSC KIFRCYADFG RAADARKLFD  60
EIPRPDLVSF TSLMSLHIRL ERHRAALSLF SRAVADGHRP DGFAVVGALS ASGGAGDHQV  120
GRAVHGLIFR LGLHSEVVVG NALVDMYSRC GKFESALLVF DRMFLKDEIT WGSMLHGYIK  180
CAGFDLALSF FDQMPVKSVV AWTALITGHV QVRLPVRALE LFGRMVLEGH CPTHVTIVGV  240
LSACADIGAL DLGRIIHGYG IKCNASSNII VSNALMDMYA KSGSVEMAFS VFQEVQSKDA  300
FTWTTMISCF TVQGDGRKAL ELFWDMLRSG VVPNSVTFVS VLSACSHAGL IEEGRQLFGT  360
MREMYGIDPQ LEHYGCMVDL LARGGMLEEA EALIVDMNVE PDIVIWRSLL SACLVHRNAR  420
LAEIAGKEIM KREPGDDGVY VLLWNMYASS NKWREARAIR QQMLTRKIFK KPGCSWIEVD  480
GVVHEFLMCS GDEIDGDASV GHNGFKDIRR YNCEFCTVVR SKKCLIQAHM VEHHKDELDK  540
SETYNSNGEK IVCEEEHRCL ECGACFQKPA HLKQHMQSHS NERLFICQLE DCPFSYKRKD  600
HLNRHMLKHQ GKLFSCTVDG CDRRFSIKAN MQRHVKEFHD DVKEFHDNEN VTKSNQQFIC  660
KEEGCNKAFK YLSKLKKHEE SHVKLNYTEV VCCEPGCMKM FTNVECLRAH NQSCHQHVQC  720
EICGKKHLKK NIKRHLQAHD EVASGERIKC TFDGCDRSFS SKSNLTKHKK ACHDRMKHFT  780
CRVAGCGKVF TYKHVRDNHE KSSAHVYVEG DFEEMDEQLR SRPRGGRKRK ALTVETLTRK  840
RVTIPGEASS LLDGAEYLSW LLSGGDEAQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5iww_D2e-59204173338PLS9-PPR
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1821829RPRGGRKRK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.197380.0callus| leaf| root| stem
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAPTransfer from AT1G72050Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1KG020700.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025795590.10.0pentatricopeptide repeat-containing protein At2g22410, mitochondrial-like
TrEMBLK3Z0X60.0K3Z0X6_SETIT; Uncharacterized protein
STRINGPavir.Ab00169.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP23823882
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-116transcription factor IIIA