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 887320
Common NameARALYDRAFT_887320
Organism
Arabidopsis lyrata
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: 343aa    MW: 38666.9 Da    PI: 6.8859
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
887320genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH37.15.3e-12200225126
              --S---SGGGGTS--TTTTT-SS-SS CS
  zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
              y   +C+++ +tG+C yGd+CkF H+
   887320 200 YQPDICKDYKETGYCGYGDSCKFLHD 225
              67789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902291.57E-9198231IPR000571Zinc finger, CCCH-type
SMARTSM003568.4E-8199226IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.009199227IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-9200225IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.4E-13200230IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.102.2E-13263317IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF578502.39E-13275318No hitNo description
PfamPF139201.4E-8275317No hitNo description
SMARTSM001849.2E-5276313IPR001841Zinc finger, RING-type
PROSITE profilePS5008910.63276314IPR001841Zinc finger, RING-type
CDDcd001625.32E-9276317No hitNo description
PROSITE patternPS005180291300IPR017907Zinc finger, RING-type, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 343 aa     Download sequence    Send to blast
MSDSGEPKPS QQEVSQPQPA GEETKSQQVC TFFKKPTKSK NIRKRAIDAD EEDGDSKSES  60
SILQNLKKVA KPDSKLYFSS GPAKSSTTSE AAERPVFHYD SSKEIQVQND SRATATLETE  120
TDFNQDARAI RERVLKKADE ALKGNKKKAS DEKLYKGIHG YTDHKAGFRR EQTISSEKAG  180
GSHGPLRASA HIRVSARFDY QPDICKDYKE TGYCGYGDSC KFLHDRGDYK PGWQIEKEWE  240
EAEKVRKRNK AMGVEDEDDE ADNDSDEDEN ALPFACFICR EPFVDPVVTK CKHYFCEHCA  300
LKHHTKNKKC FVCNQPTMGI FNAAHEIKKR MAEERSKAEE GL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M3e-662834113327RING finger protein 113A
5z58_M3e-662834113327RING finger protein 113A
6ff4_t3e-662834113327RING finger protein 113A
6ff7_t3e-662834113327RING finger protein 113A
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMap887320
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4934190.0AB493419.1 Arabidopsis thaliana At1g01350 mRNA for hypothetical protein, partial cds, clone: RAAt1g01350.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002892071.10.0zinc finger CCCH domain-containing protein 1
SwissprotQ8GX840.0C3H1_ARATH; Zinc finger CCCH domain-containing protein 1
TrEMBLD7KQ850.0D7KQ85_ARALL; Zinc finger family protein
STRINGscaffold_100114.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM110992634
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01350.10.0C3H family protein