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.6KG056200.3.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: 547aa    MW: 61193.6 Da    PI: 7.1511
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG056200.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH31.52.9e-103460127
                         --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                         ++++ C++++++G C+yG++C F+H+p
  Pavir.6KG056200.3.p 34 PGEPDCSYYLKFGRCRYGSKCMFNHPP 60
                         5789*********************96 PP
2zf-CCCH22.42.1e-0789114126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ++++ C+++ ++G Ck+  +C+F+H+
  Pavir.6KG056200.3.p  89 PGEPDCSHYVKFGSCKFEMNCRFNHP 114
                          5789*********************8 PP
3zf-CCCH361.2e-11147172126
                          --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                          ++t lC+++++ G Ck+G++CkF+H+
  Pavir.6KG056200.3.p 147 PGTGLCSYYMQKGVCKFGSNCKFHHP 172
                          5799*********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.3E-53360IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.7413361IPR000571Zinc finger, CCCH-type
PfamPF006423.1E-73560IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-53761IPR000571Zinc finger, CCCH-type
SMARTSM003560.01788115IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.28188116IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-490114IPR000571Zinc finger, CCCH-type
SMARTSM003562.5E-5146173IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.488146174IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.93E-7147173IPR000571Zinc finger, CCCH-type
PfamPF006425.1E-9148172IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.3E-6149171IPR000571Zinc finger, CCCH-type
SMARTSM003221.9E-7371448IPR004087K Homology domain
PfamPF000131.1E-11385444IPR004088K Homology domain, type 1
SuperFamilySSF547914.38E-12386453IPR004088K Homology domain, type 1
Gene3DG3DSA:3.30.1370.103.3E-14387449IPR004088K Homology domain, type 1
CDDcd001057.72E-10387444No hitNo description
PROSITE profilePS5008413.691388443IPR004088K Homology domain, type 1
Gene3DG3DSA:3.30.1370.101.1E-19466544IPR004088K Homology domain, type 1
SMARTSM003223.9E-17469543IPR004087K Homology domain
SuperFamilySSF547912.34E-17469544IPR004088K Homology domain, type 1
PROSITE profilePS5008417.527470538IPR004088K Homology domain, type 1
CDDcd001057.51E-17473539No hitNo description
PfamPF000131.3E-16474540IPR004088K Homology domain, type 1
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 547 aa     Download sequence    Send to blast
MDSKDDGQVP KPTEALRHAA AGEEPELVVH SQRPGEPDCS YYLKFGRCRY GSKCMFNHPP  60
KHWAGQWQRH AIAAGEKQGQ QAAEYPRRPG EPDCSHYVKF GSCKFEMNCR FNHPSRKQVY  120
FPAGACKCNH HEIEEVRLNS LGLPLRPGTG LCSYYMQKGV CKFGSNCKFH HPNRSESEQE  180
KLNADSEGSS QQNFYSILGD IIKPHPDLSP RHAPPPLDLP VPSYLLQQSS KGKEDESFSL  240
TQPRQVYSCP EQSGYQQLAD SHFEPAKQVR YTRDQLLQRR EKTQQLVDVS KDILELKQCI  300
EMELHGEDYS WPNNDSNVHT LSYHRYDLAD RRERHPRSTA KIPEVASEEK YWDNIDEEKE  360
SYGTSGKQEQ FCKHDQLRCF EFDSKPQVGV LIGKAGETIR NLQTSSGAKI QITKDIDADS  420
SALTRSVELV GTLASVDKAE QLIKSVIAEA EAGGSPALIA RGFGSGQSGS EQFEMTVPDN  480
KVGLIIGKGG ETIKGLQTRS GARIQLIPQH PPEGVTLTER TVRVTGNKKQ IEVAKDLIKQ  540
AMNQVM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1j4w_A7e-1538854214174FUSE binding protein
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1275282LLQRREKT
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6KG056200.3.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
GenBankBT0415111e-165BT041511.1 Zea mays full-length cDNA clone ZM_BFc0007K14 mRNA, complete cds.
GenBankBT0551151e-165BT055115.1 Zea mays full-length cDNA clone ZM_BFc0016A18 mRNA, complete cds.
GenBankBT0644611e-165BT064461.1 Zea mays full-length cDNA clone ZM_BFc0171I13 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
TrEMBLA0A0A9CJF81e-113A0A0A9CJF8_ARUDO; Uncharacterized protein
STRINGPavir.Fa02179.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G18550.13e-30C3H family protein