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 RrC117_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: 319aa    MW: 35138.2 Da    PI: 7.9259
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC117_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH47.23.6e-15234258226
                -S---SGGGGTS--TTTTT-SS-SS CS
    zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                ktelC+ +++tGtC+yGd C+FaHg
  RrC117_p1 234 KTELCNKWQETGTCPYGDHCQFAHG 258
                9***********************8 PP
2zf-CCCH21.25e-07271296126
                --S---SGGGGTS--TTTTT-SS-SS CS
    zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                ykte Cr  +++ +C+yG rC+F H+
  RrC117_p1 271 YKTEVCRMVLAGDICPYGHRCHFRHS 296
                9**********55**********998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.1E-18227265IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.19E-11229264IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.23232260IPR000571Zinc finger, CCCH-type
SMARTSM003563.9E-9232259IPR000571Zinc finger, CCCH-type
PfamPF006423.2E-12234258IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.0E-12266299IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.01E-9266301IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-5270297IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.272270298IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 319 aa     Download sequence    Send to blast
MENETAPFTY SVITSHGEPS VGGGGGVVNQ IYRSSSAMQQ QRRQDMVNRE ALCYTRLHEA  60
SLEAEVLRLE NTELRSMNLH LKRELDELIR SSVQNSRHRF GYDRVPLRML SNLSIGDRGG  120
AEDDDAENRN RAVSRDDVSE ESPTSVIANE DLNRSSLPKS ISVRSSGYSK ASQGGGGGGG  180
SAAAQCGKSR GVVAKPGVCG QQLSTTQRVY VRGGGKKEEE EEIEVEVYNQ GMTKTELCNK  240
WQETGTCPYG DHCQFAHGIK ELRPVIRHPR YKTEVCRMVL AGDICPYGHR CHFRHSLSEQ  300
EKLVASAGCK PNNKSFKAG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A1e-22234299570Butyrate response factor 2
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00383ampDAPTransfer from AT1G68200Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1894891e-130AC189489.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB084K02, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018453373.10.0PREDICTED: zinc finger CCCH domain-containing protein 15
SwissprotQ9C9F51e-140C3H15_ARATH; Zinc finger CCCH domain-containing protein 15
TrEMBLA0A397YQ201e-176A0A397YQ20_BRACM; Uncharacterized protein
STRINGBra004288.1-P1e-176(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72872339
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68200.11e-124C3H family protein