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 GSBRNA2T00054504001
Common NameGSBRNA2T00054504001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C3H
Protein Properties Length: 1325aa    MW: 146430 Da    PI: 8.0146
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00054504001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.28.8e-0613031324426
                           ---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH    4 elCrffartGtCkyGdrCkFaHg 26  
                           ++C+ f+++G Ck G++C+F H+
  GSBRNA2T00054504001 1303 KICK-FYESGNCKKGASCSFWHP 1324
                           6899.8999***********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.104.1E-781143IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579032.33E-784142IPR011011Zinc finger, FYVE/PHD-type
PROSITE profilePS500168.58288154IPR019787Zinc finger, PHD-finger
CDDcd155688.99E-1990135No hitNo description
SMARTSM002491.6E-690136IPR001965Zinc finger, PHD-type
PROSITE patternPS01359091151IPR019786Zinc finger, PHD-type, conserved site
SMARTSM001513.1E-4294384IPR019835SWIB domain
SuperFamilySSF475923.92E-22303380IPR003121SWIB/MDM2 domain
Gene3DG3DSA:1.10.245.102.5E-24304383IPR003121SWIB/MDM2 domain
PfamPF022014.7E-15308379IPR003121SWIB/MDM2 domain
PROSITE profilePS5136019.397433566IPR004343Plus-3 domain
SMARTSM007194.0E-48433543IPR004343Plus-3 domain
SuperFamilySSF1590427.59E-27434561IPR004343Plus-3 domain
PfamPF031261.1E-18438541IPR004343Plus-3 domain
SuperFamilySSF552771.31E-15752808IPR003169GYF domain
PROSITE profilePS5082915.192755809IPR003169GYF domain
CDDcd000722.12E-18755812No hitNo description
SMARTSM004441.7E-14756811IPR003169GYF domain
PfamPF022135.8E-11757801IPR003169GYF domain
Gene3DG3DSA:3.30.1490.404.0E-16757809IPR003169GYF domain
PROSITE profilePS5010314.15512991324IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.6E-512991323IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.6E-413031323IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1325 aa     Download sequence    Send to blast
MENQQKHQLQ QVPGDESSVK GVVDRVRVDQ CGEIGASQAP SVPAPTVAGV VDEPAPVKRK  60
RGRPPRAHAK TVSQTRPPPP PRKDEKEEDV CFICFDGGDL VLCDRRNCPK AYHPACIKRD  120
EAFFRTAAKW NCGWHICGTC QKGSSYMCYT CTFSVCKRCI KDADYVIVRG NMGLCGTCIK  180
PIMLIENISQ GDNEAVKVDF DDKLSWEYLF KVYWLCLKEE LSLTVEELTR ANNPWKEVPY  240
TVPKVESRNI HTLSKACSSG NSDSDVVANG TKRKRTSDSP TVPSKLATKI PSNIPKKLPG  300
DTNWATKELL EFLSVMRNGD TSVLSQFDVQ GLLLDYIKKK NLRDPNQKSQ VVCDQMLVKL  360
FGRQRVGHFE MLKLLESHFL IQEKPKNGES SHAVRSQIEK DSAYDPVVRD RKRKMRRKTD  420
GGVQNENLDA YAAIDVHNIN LIYLRRKFLE TLLDDINKVH EKVVGTILRI KVSGSDQKLD  480
IYRLVQVVGT SKASASYQLG TKTTDVMLEI LNLDKREVIS IDQLSDQNVT EDECKRLRQS  540
IKCGLNKRLT VGDILKTAAT LQVMRVNEVL EADMLKLGHL RDRASEQGRK KEYPFFRLPY  600
YIYCTSLTLY LQMLSSFHLD VWFALGCERH FYTGCMERSK CVEKLGRLES PEERQRLLQE  660
VPEVHTDPSM DPSHPSAEDA VLGMRKPDKH IEVQSKSPKK KGDILNNLGN NPQKKYDAPV  720
LRSRKAMHAT NKEECSKVDN NSADIQQTGK DDEESEIWHY RDPAGKTQGP FSMVQLRKWK  780
SCGHFPPYLR IWKEHENQDE SVLLTDALAG RFDKATTLPS SSFHPQELKP SPHHSGRTGV  840
DANCLQKNLK PVSTSSTSSS SSIVNALPND PKEKQVATLV PCSGKVEDGI SVRPQPQVSC  900
PASMSVIPGH VITPDVRENS GTDQSSAVRP DGKTLEDGAN SGSVSINGSV HAPNLNQKIH  960
FRDFPSPTPK SSPEDLEAQA AETIQSLSSC VLVKGPSGVT WSTTATTTVD APTTTTTSSV  1020
VVTGGQLPQV TQQSAVDLAA PSVKHIDLAA DHATATHTSN NTHVAHSSGW PAIVADPDEC  1080
DESVSDLLAE VEAMEQNGLP SSPTSTFHYD DDDLTKGPEK DFFNPVARMS LTPETCRMNT  1140
SQPSILDNVS TGKSSMGTES KDNTLFNAGP ELLLFAPPAP SSVSQDLTLT TTALRLGSET  1200
TVKAGSVERL PKSLSGVSLE PSPSPRGNTE RSPRGNTERS PRGNGSHQRR SGGHSRDRQW  1260
WNNGHNTSVN NNSHNNRQWP NSSRHGYDHG SGSYTAHPPK GLKICKFYES GNCKKGASCS  1320
FWHP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4gnd_A1e-12881571581Histone-lysine N-methyltransferase NSD3
4gnd_C1e-12881571581Histone-lysine N-methyltransferase NSD3
4gne_A1e-12881571581Histone-lysine N-methyltransferase NSD3
4gnf_A1e-12881571581Histone-lysine N-methyltransferase NSD3
4gng_A1e-12881571581Histone-lysine N-methyltransferase NSD3
4gng_D1e-12881571581Histone-lysine N-methyltransferase NSD3
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00054504001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1895080.0AC189508.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB088I08, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009115788.10.0PREDICTED: zinc finger CCCH domain-containing protein 44-like isoform X1
SwissprotQ9SD340.0C3H44_ARATH; Zinc finger CCCH domain-containing protein 44
TrEMBLA0A078JII30.0A0A078JII3_BRANA; BnaA09g54650D protein
STRINGBra036836.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM77872130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G51120.10.0DNA binding;zinc ion binding;nucleic acid binding;nucleic acid binding
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]