PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT2G28450.1
Common NameT1B3.3
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C3H
Protein Properties Length: 809aa    MW: 89022.5 Da    PI: 5.1685
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT2G28450.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH30.84.9e-1080106127
                  --S---SGGGGTS--TTTTT-SS-SSS CS
      zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                  +kt+lC++f+r   C++G+ Ck+aHg+
  AT2G28450.1  80 WKTSLCSYFRREASCSHGNECKYAHGE 106
                  8************************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.0E-1275111IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.45E-877111IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.61979107IPR000571Zinc finger, CCCH-type
SMARTSM003563.6E-479106IPR000571Zinc finger, CCCH-type
PfamPF006429.1E-880106IPR000571Zinc finger, CCCH-type
SuperFamilySSF549287.15E-7176243IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3301.7E-7176238IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168749.733261809IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533356.81E-48263289IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533356.81E-48321460IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533356.81E-48496617IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1507.9E-68506617IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138475.6E-10561635IPR025714Methyltransferase domain
CDDcd024401.50E-6563617No hitNo description
Gene3DG3DSA:3.40.50.1507.9E-68688748IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533356.81E-48696749IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059582.3E-8696744IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300704736IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1507.9E-68784809IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533356.81E-48793809IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0001510Biological ProcessRNA methylation
GO:0006396Biological ProcessRNA processing
GO:0000166Molecular Functionnucleotide binding
GO:0003677Molecular FunctionDNA binding
GO:0008173Molecular FunctionRNA methyltransferase activity
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 809 aa     Download sequence    Send to blast
METSSIEINE LPLATKTQTP PASVEPIPME TSSIDELPSS DSNATDNIEA VGEKRKRADE  60
DEKTNLESSD TKITTPSPWW KTSLCSYFRR EASCSHGNEC KYAHGEAELR MKPDNTWDPT  120
SERGKKAKAM KMSEHEEKEE DEVLFTEQMM ESIDGDEGGG GSVSVVDLSL SKCLVHLPNK  180
WQSDELKKFL GEQGVLYKSA KKRRGMIVGF VTFENAEQLQ SGVEILDGKT VNSSNLKIAD  240
VLPRTFDKND ARKSVKSARD AVTPLAYLSY ADQLEQKKTS IGQMLKKLAR NARKACPNGN  300
SLPQWVLTSR DRGGLACNLE GIIESPITNG YRNKCEFSVG LSLQGKPTVG FSLGSFCAGV  360
TAVEEPVDCP NVSKIASQYA SIFQKFIENS KFQVWNRFQH SGFWRQLTVR EGRKPGVFSN  420
DEDAITRIAE VMLMVQVCLT GSDEAEVATE FEELAKAFAE GARASSPTLP LTVLVVQNHS  480
GISNVAPPDA PLQVLAIPIS DNGTDQEQTT NVLTEARIHD HINNLRFSIS PTAFFQVNTV  540
TAEKLYSIAG DWADLGPDTL LFDVCCGTGT IGLTLAHRVG MVIGIEMNAS AVADAERNAT  600
INGISNCKFI CSKAEDVMSS LLKQYLDVTQ MEEAKPLSNA NDDLNKQIPS TEEMTNSEHV  660
ADQNLPPSNT QVEELQDNEQ KDSSSLEPEK TTKPQFKNVV AIVDPPRSGL HPAVIKALRT  720
HPRLKRLVYI SCNPETLVAN AIELCTPSFD EPDRGNKNYR GRKKIGIAAL ARHRAKSMPT  780
SEAFRPVKAM AVDLFPHTDH CEMVMLLER
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A9e-2025962477371Uncharacterized RNA methyltransferase SP_1029
5xj2_A1e-1925962477371Uncharacterized RNA methyltransferase SP_1029
5xj2_B1e-1925962477371Uncharacterized RNA methyltransferase SP_1029
5xj2_C1e-1925962477371Uncharacterized RNA methyltransferase SP_1029
5xj2_D1e-1925962477371Uncharacterized RNA methyltransferase SP_1029
5zq0_A1e-1925962478372Uncharacterized RNA methyltransferase SP_1029
5zq1_A9e-2025962477371Uncharacterized RNA methyltransferase SP_1029
5zq8_A1e-1925962477371Uncharacterized RNA methyltransferase SP_1029
5zq8_B1e-1925962477371Uncharacterized RNA methyltransferase SP_1029
5zth_A1e-1925962478372Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.449900.0bud| cell culture| flower| silique
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible265274_at0.0
Expression AtlasAT2G28450-
AtGenExpressAT2G28450-
ATTED-IIAT2G28450-
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT2G28450.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Interaction ? help Back to Top
Source Intact With
IntActSearch Q8L7S3
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT2G28450
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
RefseqNP_180412.20.0zinc finger (CCCH-type) family protein
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLF4IIP90.0F4IIP9_ARATH; Zinc finger (CCCH-type) family protein
STRINGAT2G28450.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM120031516
Representative plantOGRP60881112
Publications ? help Back to Top
  1. Dal Bosco C, et al.
    Inactivation of the chloroplast ATP synthase gamma subunit results in high non-photochemical fluorescence quenching and altered nuclear gene expression in Arabidopsis thaliana.
    J. Biol. Chem., 2004. 279(2): p. 1060-9
    [PMID:14576160]
  2. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  3. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]
  4. Van Leene J, et al.
    Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana.
    Mol. Syst. Biol., 2010. 6: p. 397
    [PMID:20706207]
  5. Bienvenut WV, et al.
    Comparative large scale characterization of plant versus mammal proteins reveals similar and idiosyncratic N-α-acetylation features.
    Mol. Cell Proteomics, 2012. 11(6): p. M111.015131
    [PMID:22223895]
  6. 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]