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 Carubv10013054m
Common NameCARUB_v10013054mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family HB-PHD
Protein Properties Length: 736aa    MW: 81399.9 Da    PI: 4.6168
Description HB-PHD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10013054mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox35.81.4e-116306721153
                      HHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHH CS
         Homeobox  11 qleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRa 53 
                        ++L   F++n+yp+++++e LAk+l++t +qV++WF+ +R+
  Carubv10013054m 630 KAQRLYISFQENQYPDKATKESLAKELRMTITQVSNWFKYKRY 672
                      67889999*********************************98 PP
2PHD40.46.5e-14272327151
                      SBTTTSS..TCTTSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHTT CS
              PHD   1 rCkvCgk..sdeegelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCkek 51 
                      +C+ Cg+     +++++lCdg C++ fH++Cl+++l++e++p +   wlC+ C++k
  Carubv10013054m 272 FCAKCGSkdLSVDNDIILCDGfCDRGFHQYCLEPPLRKEDIPPDdeGWLCPGCDCK 327
                      699***955445********88*******************99999*******985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF579035.76E-14262327IPR011011Zinc finger, FYVE/PHD-type
Gene3DG3DSA:3.30.40.102.1E-13268326IPR013083Zinc finger, RING/FYVE/PHD-type
PROSITE profilePS5001611.208270327IPR019787Zinc finger, PHD-finger
CDDcd155049.84E-28272324No hitNo description
PfamPF006281.9E-11272327IPR019787Zinc finger, PHD-finger
SMARTSM002491.5E-9272325IPR001965Zinc finger, PHD-type
PROSITE patternPS013590273324IPR019786Zinc finger, PHD-type, conserved site
PROSITE profilePS5007111.451617677IPR001356Homeobox domain
SMARTSM003891.2E-7619681IPR001356Homeobox domain
SuperFamilySSF466891.07E-10622672IPR009057Homeodomain-like
PfamPF000464.5E-9629672IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.8E-11631678IPR009057Homeodomain-like
CDDcd000862.61E-10632672No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 736 aa     Download sequence    Send to blast
MNGAACKRVT RSSASGSKQI NVDCGREVNP TVDNASEQGN ASVPLKPSVA GSNMPNDANE  60
DGHLHHEIRE NGNGKEVQKP SPQTEKKRSN AKTKFSGSHR ELVLGLPCSG QFDIQLSKSS  120
KSSKRLGGGG ERKVLFSSHK SAQKSKEAAG PSLVPANNKP VGRPKKRNKT MKKGQVREDD  180
EYTRIKKKLR YFLNRISYEQ NLIDAYSLEG WKGSSLEKLR PEKELERATQ EILRRKLKIR  240
DLFQHLDTLC AEGSLPESLF DSDGEISSED IFCAKCGSKD LSVDNDIILC DGFCDRGFHQ  300
YCLEPPLRKE DIPPDDEGWL CPGCDCKDDS LDLLNDSLGT KLSVSDSWEK IFPEAAALLS  360
GGDQNLNCDL PSDDSDDEEY NPDGLNDNEN EEDNSEESEN EDGSSDESDF TSASDEMIES  420
FKEGKDIMKD IMALPSDDSE DDDYDPEAPT RDEDEIQESS NSDCTSDSED IETSFKGNES  480
NQQEKVTPLE DPGRKKFQLP CEAISESDAV LDDGLAGVPK RRNVERLDYK KLYDDEYENV  540
PSSSSDDDDW DTTAKMGKEN SESEDEGDTA PLKQSSSAED HTSKKPRRKS KRADKNDTLK  600
VREQGPGENG CSGPSGEKSS SSAYKQTDPK AQRLYISFQE NQYPDKATKE SLAKELRMTI  660
TQVSNWFKYK RYSTNSKAVV SEEDVEKSKT GKEGECGRSV AGSSKQTTME TASVAGNKSV  720
ALESTKPGSR KRRRR*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1183189RIKKKLR
2583591KKPRRKSKR
3729733RKRRR
Functional Description ? help Back to Top
Source Description
UniProtBinds only to large DNA fragments. Recognizes a DNA fragment carrying 8 copies of box7 motif of the light-induced cab-E promoter of Nicotiana plumbaginifolia. Also recognizes the box7m1 motif.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10013054m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1171050.0AK117105.1 Arabidopsis thaliana At3g19510 mRNA for putative homeobox protein HAT3.1, complete cds, clone: RAFL16-64-G01.
GenBankBT0059650.0BT005965.1 Arabidopsis thaliana At3g19510 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023641273.10.0homeobox protein HAT3.1
SwissprotQ049960.0HAT31_ARATH; Homeobox protein HAT3.1
TrEMBLR0G2870.0R0G287_9BRAS; Uncharacterized protein
STRINGXP_006296599.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72702543
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G19510.10.0Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain
Publications ? help Back to Top
  1. Sanz-Fernández M, et al.
    Screening Arabidopsis mutants in genes useful for phytoremediation.
    J. Hazard. Mater., 2017. 335: p. 143-151
    [PMID:28441590]