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 AT5G18550.1
Common NameT28N17.30
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: 465aa    MW: 49463.9 Da    PI: 6.85
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G18550.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH38.22.4e-125378227
                 -S---SGGGGTS--TTTTT-SS-SSS CS
      zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                 +++ C +++rtG C yG+rC+F+H++
  AT5G18550.1 53 DEPDCIYYLRTGVCGYGSRCRFNHPR 78
                 6899********************96 PP

2zf-CCCH38.81.6e-1299124227
                  -S---SGGGGTS--TTTTT-SS-SSS CS
      zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                  +++ C++f+rtGtCk+G++Ck++H++
  AT5G18550.1  99 GQPVCQHFMRTGTCKFGASCKYHHPR 124
                  5789********************96 PP

3zf-CCCH37.73.5e-12147171226
                  -S---SGGGGTS--TTTTT-SS-SS CS
      zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                  ++++C++f+rtG+Ck+G++C+++H+
  AT5G18550.1 147 GEKECSYFMRTGQCKFGSTCRYHHP 171
                  7899********************9 PP

4zf-CCCH39.87.4e-13302327227
                  -S---SGGGGTS--TTTTT-SS-SSS CS
      zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                   +++C++f+rtG Ck+G +C+F+H++
  AT5G18550.1 302 EQPECQYFMRTGDCKFGTSCRFHHPM 327
                  5799********************95 PP

5zf-CCCH33.76e-11349371426
                  ---SGGGGTS--TTTTT-SS-SS CS
      zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                  ++C +fa+ G+Ck+G+ CkF H+
  AT5G18550.1 349 VPCTHFAQHGICKFGPACKFDHS 371
                  79********************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.5E-45178IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.0985179IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-95378IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.62E-65580IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.7E-55778IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.27797125IPR000571Zinc finger, CCCH-type
SMARTSM003562.5E-697124IPR000571Zinc finger, CCCH-type
PfamPF006424.0E-1099124IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-699124IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.7E-5102124IPR000571Zinc finger, CCCH-type
SMARTSM003562.2E-6145172IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.394145173IPR000571Zinc finger, CCCH-type
PfamPF006428.2E-10147171IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.79E-6148172IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.2E-4151170IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.356300328IPR000571Zinc finger, CCCH-type
SMARTSM003564.4E-6300327IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.01E-6301328IPR000571Zinc finger, CCCH-type
PfamPF006427.6E-10303327IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.9E-5306326IPR000571Zinc finger, CCCH-type
SMARTSM003561.0E-6345372IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.389345373IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-8348371IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-5348373IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.6E-4350371IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008150Biological Processbiological_process
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000037anatomyshoot apex
PO:0000084anatomyplant sperm cell
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0009005anatomyroot
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009052anatomyflower pedicel
PO:0020100anatomyhypocotyl
PO:0025022anatomycollective leaf structure
PO:0025195anatomypollen tube cell
PO:0025281anatomypollen
PO:0001016developmental stageL mature pollen stage
PO:0001017developmental stageM germinated pollen 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:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 465 aa     Download sequence    Send to blast
MERYGGAGED ESRSDPSHEW SAQGTETGIE ASMWRLGLRG GGGGGETFPE RPDEPDCIYY  60
LRTGVCGYGS RCRFNHPRNR APVLGGLRTE AGEFPERMGQ PVCQHFMRTG TCKFGASCKY  120
HHPRQGGGGD SVTPVSLNYM GFPLRPGEKE CSYFMRTGQC KFGSTCRYHH PVPPGVQAPS  180
QQQQQQLSAG PTMYPSLQSQ TVPSSQQYGV VLARPQLLPG SYVQSPYGYG QMVLPPGMVP  240
YSGWNPYQAS VSAMPSPGTQ PSMGTSSVYG ITPLSPSAPA YQSGPSSTGV SNKEQTFPQR  300
PEQPECQYFM RTGDCKFGTS CRFHHPMEAA SPEASTLSHI GLPLRPGAVP CTHFAQHGIC  360
KFGPACKFDH SLGSSSLSYS PSPSSLTDMP VAPYPSSLGT LAPSSSSDQC TELISSSSIE  420
PITTTTGGSE TVAAGVSSMT SDVSHPEPAE TNKGDSASNE AKTSS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.225350.0floral meristem| root| seed
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO795162120.0
Genevisible249991_at0.0
Expression AtlasAT5G18550-
AtGenExpressAT5G18550-
ATTED-IIAT5G18550-
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G18550.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G18550
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2301750.0AK230175.1 Arabidopsis thaliana mRNA for zinc finger like protein, complete cds, clone: RAFL22-89-O03.
GenBankBT0108860.0BT010886.1 Arabidopsis thaliana At5g18550 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_197356.20.0Zinc finger C-x8-C-x5-C-x3-H type family protein
SwissprotQ6NPN30.0C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBLA0A178U7840.0A0A178U784_ARATH; Uncharacterized protein
STRINGAT5G18550.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17792786
Representative plantOGRP28651131
Publications ? help Back to Top
  1. Hu W,Wang Y,Bowers C,Ma H
    Isolation, sequence analysis, and expression studies of florally expressed cDNAs in Arabidopsis.
    Plant Mol. Biol., 2003. 53(4): p. 545-63
    [PMID:15010618]
  2. Lee BH,Henderson DA,Zhu JK
    The Arabidopsis cold-responsive transcriptome and its regulation by ICE1.
    Plant Cell, 2005. 17(11): p. 3155-75
    [PMID:16214899]
  3. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  4. Delaney KJ, et al.
    Calmodulin interacts with and regulates the RNA-binding activity of an Arabidopsis polyadenylation factor subunit.
    Plant Physiol., 2006. 140(4): p. 1507-21
    [PMID:16500995]
  5. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]
  6. Ascencio-Ib
    Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection.
    Plant Physiol., 2008. 148(1): p. 436-54
    [PMID:18650403]
  7. Wang Y, et al.
    Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis.
    Plant Physiol., 2008. 148(3): p. 1201-11
    [PMID:18775970]