PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009115788.1
Organism
Brassica rapa
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: 1288aa    MW: 142210 Da    PI: 7.467
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009115788.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH18.53.7e-0612671288426
                      ---SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH    4 elCrffartGtCkyGdrCkFaHg 26  
                      ++C+ f+++G+Ck G+ C+F H+
  XP_009115788.1 1267 KICK-FYESGYCKKGAACSFWHP 1288
                      6899.8999***********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.40.105.4E-782143IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF579032.08E-784142IPR011011Zinc finger, FYVE/PHD-type
PROSITE profilePS500168.58288154IPR019787Zinc finger, PHD-finger
CDDcd155681.08E-1890135No 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:1.10.245.102.0E-24304384IPR003121SWIB/MDM2 domain
PfamPF022014.5E-15308379IPR003121SWIB/MDM2 domain
PROSITE profilePS5136019.397438571IPR004343Plus-3 domain
SMARTSM007194.0E-48438548IPR004343Plus-3 domain
SuperFamilySSF1590427.32E-27439566IPR004343Plus-3 domain
PfamPF031261.1E-18443546IPR004343Plus-3 domain
SuperFamilySSF552771.27E-15712768IPR003169GYF domain
CDDcd000722.04E-18715772No hitNo description
PROSITE profilePS5082915.192715769IPR003169GYF domain
SMARTSM004441.7E-14716771IPR003169GYF domain
PfamPF022135.7E-11717761IPR003169GYF domain
Gene3DG3DSA:3.30.1490.403.9E-16717769IPR003169GYF domain
PROSITE profilePS5010313.81712631288IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.52E-512631287IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.9E-412671287IPR000571Zinc 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: 1288 aa     Download sequence    Send to blast
MENQQKHQLQ QVRGDESSVK GVVDRVRVDQ CGEIGASQAP SVPAPTVAGV VDEAAPVKRK  60
RGRPPRAHGK TVSQTRPPPP PRKDEKEEDV CFICFDGGDL VLCDRRNCPK AYHPACIKRD  120
EAFFRTAAKW NCGWHICGTC QKGSSYMCYT CTFSVCKRCI KDADYVIVRG NMGLCGTCIK  180
PIMLIENISQ GDNEAVKVDF DDKLSWEYLF KVYWLCLKEE LSLTVEELTR ANNPWKEVPY  240
TVPKVESRNI HTLSKACSSG NSDSDVVANG TKRKRTSDSP TVPSKLDSKI PSNIPKKLPG  300
DTNWATKELL EFLSVMRNGD TSVLSQFDVQ GLLLDYIKKK NLRDPNQKSQ VVCDQMLVKL  360
FGRQRVGHFE MLKLLESHFL IQEKPKEEKP KNGESSHAVR SQIEEDSAYD PVVRDRKRKM  420
RRKTDGGVQN ENLDAYAAID VHNINLIYLR RKFLETLLDD INKVHEKVVG TILRIKVSGS  480
DQKLDIYRLV QVVGTSKASA SYQLGTKTTD VMLEILNLDK REVISIDQLS DQNVTEDECK  540
RLRQSIKCGL NKRLTVGDIL KTAATLQVMR VNEVLEADML KLGHLRDRAS EQGRKKELRE  600
CVEKLGRLES PEERQRLLQE VPEVHTDPSM DPSHPSAEDA VLGMRKPDKH IEVQSKSPKK  660
KRDILNNLGN NPQKKYDAPV LRSRKAMHAT NKEECSKVDN NSADIQQTGK DDEESEIWHY  720
RDPAGKTQGP FSMVQLRKWK SCGHFPPYLR IWKEHENQDE SVLLTDALAG RFDKATTLPS  780
SSFHPQELKP SPHHSGRTGV DVNCLQKNLK PVSTSSTSSS SSIVNALPND PKEKQVATLV  840
PCSGKVEDGI SVRPQPQVSC PASMSVIPGH VITPDVRENS GTDQSSAVRP DGKTLEDGAN  900
SGSVSINGSV HAPNLNQKIH FRDFPSPTPK SSPEDLEAQA AETIQSLSSC VLVKGPSGVT  960
WSTTATTTVD APTTTTTTSS VVVTGGQLPQ VTQQSAVDLA APSVKHIDLA ADHATATHTS  1020
NNTHVAHSSG WPAIVADPDE CDESVSDLLA EVEAMEQNGL PSSPTSTFHC DDDDDLMKGP  1080
EKDFFNPVLR MFLTHETCRM DVSQPSFLDY VSAGKSSTGT EAQDNTHFSH CGTAGPELLL  1140
APPAPASTSQ DLTLTTTALR LGSETTVEAG LVERPPKYAS GVGLESSLRS PSSHDPARGN  1200
TERSPRGNGS QQRRSGGHSR DRQWWNNGHN NSLNNSHNNN RQWPYSSSHG YDHGSGSYTA  1260
HPPKGLKICK FYESGYCKKG AACSFWHP
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
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.64560.0root
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009115788.1
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
TrEMBLA0A397Y8A10.0A0A397Y8A1_BRACM; Uncharacterized 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