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 GSBRNA2T00041728001
Common NameGSBRNA2T00041728001
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: 1274aa    MW: 140310 Da    PI: 7.7692
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00041728001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.38.5e-0612521273426
                           ---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH    4 elCrffartGtCkyGdrCkFaHg 26  
                           ++C+ f+++G Ck G++C+F H+
  GSBRNA2T00041728001 1252 KICK-FYESGNCKKGASCSFWHP 1273
                           6899.8999***********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.107.5E-893157IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579031.57E-794151IPR011011Zinc finger, FYVE/PHD-type
PROSITE profilePS500168.81499165IPR019787Zinc finger, PHD-finger
SMARTSM002494.9E-7101147IPR001965Zinc finger, PHD-type
CDDcd155689.19E-20101146No hitNo description
PROSITE patternPS013590102162IPR019786Zinc finger, PHD-type, conserved site
SMARTSM001510.0037305395IPR019835SWIB domain
Gene3DG3DSA:1.10.245.101.5E-21309396IPR003121SWIB/MDM2 domain
SuperFamilySSF475924.36E-19311391IPR003121SWIB/MDM2 domain
PfamPF022011.5E-11319390IPR003121SWIB/MDM2 domain
SMARTSM007194.7E-46449559IPR004343Plus-3 domain
PROSITE profilePS5136018.581449582IPR004343Plus-3 domain
SuperFamilySSF1590422.35E-25450578IPR004343Plus-3 domain
PfamPF031263.5E-17454557IPR004343Plus-3 domain
SuperFamilySSF552771.31E-15721777IPR003169GYF domain
PROSITE profilePS5082915.542724778IPR003169GYF domain
CDDcd000722.89E-18724781No hitNo description
SMARTSM004447.8E-15725780IPR003169GYF domain
Gene3DG3DSA:3.30.1490.401.1E-16726778IPR003169GYF domain
PfamPF022131.5E-11726770IPR003169GYF domain
SuperFamilySSF902297.72E-612481272IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.15512481273IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.4E-412521272IPR000571Zinc 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: 1274 aa     Download sequence    Send to blast
MKNQQKQLQR GASSRGEESS VRGIDLMRVD QCEEIDALSV PAPKVGGTVE QDAPVKRKRG  60
RPPKAHAKTP LQTQPPPPLP LQTQLPPPPP ITRKDDKEED VCFICFDGGD LVLCDRRNCP  120
KAYHPACINR DEAFFRTTAK WNCGWHICSK CQKSSSYLCY TCTFSVCKRC VADADYVFVR  180
GNMGLCGTCI KPIMLIENIG QGDVQAVKVD FDDKLSWEYL FKVYWLCLKE ELSLTVDELM  240
RAYNPWKEVP YTAPKVELRN DHTRNNVYSS GSSALGAADN GIKRRKTSDS STLPSKLDAK  300
NPSNTPKKRP EDTNWATKEL LEFLSFMRNG DTSVISQFDV QGLLLDYINK KNLRDPHQES  360
QVICDLMLVK LFGKQRVGHI EMLKLLESHF LIQEKPKDEK TTNGETTHVV PSQVVEDIGH  420
DPPVRDRRRK MYRKTVGRVQ NENLDAYAAI DVHNINLIYL RRKFLETLLD DINKVHEKVV  480
GTILRIKVSG SDQKLDIHRL VQVIGTSKAA ATYQLGAKTT DVMLEILNLE KREVISIDQL  540
SDQNVTEDEC KRLRQSIKCG LNKRLTVGDI LKTATTLQAM RINEALEAEI LKAKHLRDQA  600
NTGYRIFQEC VEKLALLKSP EHRQRLLQEV PEVHTDPSMD PSQPSAEDAV LSTRKQDNHI  660
KAPSKGPKRK GNILNNLGNN AQTKYDAPVL RSRKAVNVTK KDDCSKVHNN SSDIQESGKD  720
DEESEIWHYR DPTGKTQGPF SMGQLRRWKS SGHFPPYLRI WKAHENQDDS VLLTEALAGR  780
FDKATTTPSS SLLPQELKLS QHDSGRTGVD GDCLQKNLTP VSNSAASSSS STVSALPNDP  840
KEKQVATLLP CSGKVKDGNS VRSQPQVSCP ASMSVVPGHV VSPDARATSG ADGKTLEEGT  900
NGGSVHAPNL NQEIHVPEDL EAQAAETIQS LSSCVLVKGT SGVTWSTTTT TTTDAVATTS  960
SVMVTGGQLP QVTHQHAVVS AAPSVKPIDL AADHATATQT SDNTHVAHSS GWPAIVADPD  1020
ECDESVSDLL AEVEAMEQNG LPSSPTSTFH YDDDDLTKGP EKDFFNPVAR MSLTPETCRM  1080
NTSQPSILDN VSTGKSSMGT ESKDNTLFNA GPELLLFAPP APSSVSQDLT LTTTALRLGS  1140
ETTVKAGSVE RLPKSLSGVS LEPSPRSSSL HDSPRGNTER SPRGNTERSP RGNGSHQRRS  1200
GGHSRDRQWW NNGHNTSVNN NSHNNRQWPN SSRHGYDHGS GSYTAHPPKG LKICKFYESG  1260
NCKKGASCSF WHP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2naa_A3e-1497169473Histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific
4gnd_A4e-1492168881Histone-lysine N-methyltransferase NSD3
4gnd_C4e-1492168881Histone-lysine N-methyltransferase NSD3
4gne_A4e-1492168881Histone-lysine N-methyltransferase NSD3
4gnf_A4e-1492168881Histone-lysine N-methyltransferase NSD3
4gng_A4e-1492168881Histone-lysine N-methyltransferase NSD3
4gng_D4e-1492168881Histone-lysine N-methyltransferase NSD3
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00041728001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1896270.0AC189627.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrS001M03, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013737170.10.0zinc finger CCCH domain-containing protein 44-like
SwissprotQ9SD340.0C3H44_ARATH; Zinc finger CCCH domain-containing protein 44
TrEMBLA0A078GU200.0A0A078GU20_BRANA; BnaC07g32070D protein
TrEMBLA0A3P6E6200.0A0A3P6E620_BRAOL; Uncharacterized protein
STRINGBra012868.1-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]