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 Cagra.9128s0003.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C3H
Protein Properties Length: 838aa    MW: 92102.5 Da    PI: 5.38
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.9128s0003.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH31.23.6e-10117143127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                          +kt+lC++f+r   C++G+ Ck+aHg+
  Cagra.9128s0003.1.p 117 WKTSLCSYFRREASCSHGSECKYAHGE 143
                          8************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.108.3E-13112148IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-8114148IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.033116144IPR000571Zinc finger, CCCH-type
SMARTSM003563.1E-4116143IPR000571Zinc finger, CCCH-type
PfamPF006426.0E-8117143IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.70.3305.0E-7207269IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549281.54E-6207274IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168748.155292837IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533359.39E-45294320IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533359.39E-45352491IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533359.39E-45527648IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1507.9E-66540648IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138471.0E-8592658IPR025714Methyltransferase domain
CDDcd024401.12E-5594648No hitNo description
Gene3DG3DSA:3.40.50.1507.9E-66716776IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533359.39E-45724777IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059581.9E-8724772IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300732764IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1507.9E-66812837IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533359.39E-45821837IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006396Biological ProcessRNA processing
GO:0000166Molecular Functionnucleotide binding
GO:0008173Molecular FunctionRNA methyltransferase activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 838 aa     Download sequence    Send to blast
MASSSSIDEL PSSAAETLTS QPPSSTTESL PMETSAIEIN GLPLPTKTLT PPAPAKPIPM  60
ETSSIEVLHP APVEPIQSSD SNPTDNIESV GEKRKRADDE KTNLESSEMK ATPSPWWKTS  120
LCSYFRREAS CSHGSECKYA HGEQELRMKP DKTWDPTSER GKKTKAMKMS EKEDKEDEEV  180
LFTEQMMESI DDDGSVFDLS LSKCLVHLPR KWQSDELKTF LGEQGVQYKS AKKRRGMLVG  240
FVTFENAEQL QSGVEILDGK TVNSNKLKIA DVLPRTFDKN ETKKSVKCAR EAVTPLADMP  300
YADQLEQKKA SIGQMLKKLA RSARKACPNG RSLPEWVLTS RDRGGLACNF EGIIESPISN  360
GYRNKCEFSV GLSLQGKPTV GFSLGSFCAG VTAVEEPVNC PNVSQIALQY ASIFQKFIEK  420
SKLRVWNRFE HSGFWRQFSV REGRKPGVFS NDEDAVTRIA EVMLIVQVCL TGSDEAEVAT  480
EYEEMAKAFA EGARASSPTL PLTVLVVQNH TGISNVAPPD APLQVLPIPV SDDGKNQEQA  540
TNVLTEARIH DHINNLRFSI SPTAFFQVNT VTAEKLYSVA GDWADLGPDT LLFDVCCGTG  600
TIGLTLAHRV GMVIGIEMNA SAVVDAERNA TINGISNCKF ICSKAETVMS SLLKQYLDVT  660
EMEEAKPVSN ANDKQIPSTE EMSNSEHVAD QNLPPPNTQV EELQDNAEKD FSSIEPEKAI  720
KPQFKNVVAI VDPPRSGLHP AVIKALRTHP RLKRLVYISC NPETLVANAI ELCTPSFDEA  780
DRGNKTYRGN KNIGIAGLAR RRAKSMPTSE PFRPVKAMAV DLFPHTDHCE MVMLLER*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A2e-18354655120371Uncharacterized RNA methyltransferase SP_1029
5xj2_A2e-18354655120371Uncharacterized RNA methyltransferase SP_1029
5xj2_B2e-18354655120371Uncharacterized RNA methyltransferase SP_1029
5xj2_C2e-18354655120371Uncharacterized RNA methyltransferase SP_1029
5xj2_D2e-18354655120371Uncharacterized RNA methyltransferase SP_1029
5zq0_A2e-18354655121372Uncharacterized RNA methyltransferase SP_1029
5zq1_A2e-18354655120371Uncharacterized RNA methyltransferase SP_1029
5zq8_A2e-18354655120371Uncharacterized RNA methyltransferase SP_1029
5zq8_B2e-18354655120371Uncharacterized RNA methyltransferase SP_1029
5zth_A2e-18354655121372Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.9128s0003.1.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
GenBankAY1282890.0AY128289.1 Arabidopsis thaliana At2g28450/T1B3.3 mRNA, complete cds.
GenBankBT0022930.0BT002293.1 Arabidopsis thaliana At2g28450/T1B3.3 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006293437.20.0zinc finger CCCH domain-containing protein 24
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLR0HM810.0R0HM81_9BRAS; Uncharacterized protein
STRINGCagra.9128s0003.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM120031516
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28450.10.0C3H family protein
Publications ? help Back to Top
  1. Wang Y, et al.
    Identification of tRNA nucleoside modification genes critical for stress response and development in rice and Arabidopsis.
    BMC Plant Biol., 2017. 17(1): p. 261
    [PMID:29268705]