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 RrC536_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C3H
Protein Properties Length: 260aa    MW: 29837.7 Da    PI: 8.3869
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC536_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.85.8e-0695115425
                ---SGGGGTS--TTTTT-SS-S CS
    zf-CCCH   4 elCrffartGtCkyGdrCkFaH 25 
                + C+ f+  G C +G+ C + H
  RrC536_p1  95 RVCS-FYTIGRCTRGAECAYLH 115
                6799.6666************* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.2E-489116IPR000571Zinc finger, CCCH-type
SMARTSM003561.9E-491117IPR000571Zinc finger, CCCH-type
PfamPF161318.3E-791128IPR032297Torus domain
PROSITE profilePS5010313.391118IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.49E-694116IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.70.3303.3E-7141186IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549285.02E-9144210IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501029.303151190IPR000504RNA recognition motif domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000166Molecular Functionnucleotide binding
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 260 aa     Download sequence    Send to blast
TIANYDKECK VCTRPFTVFR WQPGQKSRYK KTEICQTCSK LKNVCQVCLL DLEYGLPVQT  60
RAGLDCESSF GTMGPNDTLL RLRRKEPYHE RNQPRVCSFY TIGRCTRGAE CAYLHEMPKT  120
GELSHQNIKD RYYGKAGEMG TLEPPEDESI KTLYIGGVNS RILEEDIRDQ FHAYGEIESI  180
RILAEKAFIN GQRLKLTWGR PKFSKSDQKS WDQQGSVAQQ QYYMQHPRPS NQDMPYYPSM  240
DPQRMGAAIS TQELGSSSTS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5mqf_P1e-67121237316Pre-mRNA-splicing factor RBM22
5xjc_O1e-67121237316Pre-mRNA-splicing factor RBM22
5yzg_O1e-67121237316Pre-mRNA-splicing factor RBM22
5z56_O1e-67121237316Pre-mRNA-splicing factor RBM22
5z57_O1e-67121237316Pre-mRNA-splicing factor RBM22
6ff4_P1e-67121237316Pre-mRNA-splicing factor RBM22
6ff7_P1e-67121237316Pre-mRNA-splicing factor RBM22
6icz_O1e-67121237316Pre-mRNA-splicing factor RBM22
6id0_O1e-67121237316Pre-mRNA-splicing factor RBM22
6id1_O1e-67121237316Pre-mRNA-splicing factor RBM22
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0224642e-46AC022464.4 Genomic sequence for Arabidopsis thaliana BAC F22G5 from chromosome I, complete sequence.
GenBankAY0545192e-46AY054519.1 Arabidopsis thaliana Unknown protein (At1g07360; F22G5.30) mRNA, complete cds.
GenBankAY1146322e-46AY114632.1 Arabidopsis thaliana unknown protein (At1g07360) mRNA, complete cds.
GenBankCP0026842e-46CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020866942.11e-130zinc finger CCCH domain-containing protein 4
SwissprotQ9LNV51e-130C3H4_ARATH; Zinc finger CCCH domain-containing protein 4
TrEMBLA0A087HLR21e-129A0A087HLR2_ARAAL; Uncharacterized protein
STRINGBostr.25219s0219.1.p1e-131(Boechera stricta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM347933