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.4NG303100.1.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: 598aa    MW: 66518.5 Da    PI: 7.9976
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4NG303100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.32.1e-066989526
                         --SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                         +C+ +   G+C+ G++C++ H+
  Pavir.4NG303100.1.p 69 ECNMYKM-GFCPNGPNCRYKHV 89
                         6666666.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.3E-51036IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.2021037IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.92E-61135IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.0E-51137IPR000571Zinc finger, CCCH-type
SMARTSM003560.013864IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.5963863IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.0656491IPR000571Zinc finger, CCCH-type
SMARTSM003560.00316690IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.7E-47088IPR000571Zinc finger, CCCH-type
PfamPF041466.1E-44199333IPR007275YTH domain
PROSITE profilePS5088257.393199334IPR007275YTH domain
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: 598 aa     Download sequence    Send to blast
MHGRGRGRGS YRQTVCRHWL RGLCMKGDAC GFLHQFDKAR MPVCRFFRDF GECREPDCAY  60
KHSYDDVKEC NMYKMGFCPN GPNCRYKHVK LPGPPPPVEE VLQKILQMRS FNRFGPNRNN  120
NYNQQGERPQ HPQGSGLPNQ NVAENTTATA PATGGQQAQM ANQQPPQQQH KPNTNDQVQG  180
ASNGHQTTRI ATPLPQGPSR YFIVKSCNRE NLEISVQQGI WATQRSNEAK LNEAFESTEN  240
VILIFSINRT RHFQGCAKMT SRIGGYIGGG NWKSAHGTAH YGRNFSMQWL KLCELSFQKT  300
HHLRNPYNDN LPVKISRDCQ ELEPFIGEQL ASLLYLEPDS ELTAMLIAAE AKREEEKAKG  360
VSADEAADNQ DIVLFDDNEE EEEEESEEEE EGNGQESQGR GRGRGMMWPP QMPMMRGPMM  420
GGRFPPNMIG DGFGFGGGFG MPDPFGMPRG FPPFGGPRFP VDFARGPMPG MAFPGRPPQP  480
FPLGLDMMMG PGRGPMMGGM GMGGPGRPNR PIGMAPFMPP PPPNNRPSKR EQRRPGGDRG  540
DRFETTSDQG SRGHENTLNS GAEGARSQPG DRYGRNALRD DDSESEEEAA PRRSRKR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zuu_A1e-105186362418030-kDa cleavage and polyadenylation specificity factor 30
5zuu_B1e-105186362418030-kDa cleavage and polyadenylation specificity factor 30
5zuu_C1e-105186362418030-kDa cleavage and polyadenylation specificity factor 30
5zuu_D1e-105186362418030-kDa cleavage and polyadenylation specificity factor 30
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.131690.0root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.4NG303100.1.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_025812461.10.0zinc finger CCCH domain-containing protein 45
SwissprotQ0DA500.0C3H45_ORYSJ; Zinc finger CCCH domain-containing protein 45
TrEMBLA0A2S3HH220.0A0A2S3HH22_9POAL; Uncharacterized protein
STRINGOB06G32400.10.0(Oryza brachyantha)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP59892428