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 Carubv10013245m
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: 615aa    MW: 68648.8 Da    PI: 4.3935
Description HB-PHD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10013245mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox222.8e-075776121146
                      HHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHH CS
         Homeobox  11 qleeLeelFeknrypsaeereeLAkklgLterqVkv 46 
                        ++L   F++n+yp+++++e LAk+l++t +qV++
  Carubv10013245m 577 KAQRLYISFQENQYPDKATKESLAKELRMTITQVRN 612
                      67889999**************************97 PP
2PHD40.85.2e-14219274151
                      SBTTTSS..TCTTSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHTT CS
              PHD   1 rCkvCgk..sdeegelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCkek 51 
                      +C+ Cg+     +++++lCdg C++ fH++Cl+++l++e++p +   wlC+ C++k
  Carubv10013245m 219 FCAKCGSkdLSVDNDIILCDGfCDRGFHQYCLEPPLRKEDIPPDdeGWLCPGCDCK 274
                      699***955445********88*******************99999*******985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF579034.43E-14209274IPR011011Zinc finger, FYVE/PHD-type
Gene3DG3DSA:3.30.40.101.7E-13215274IPR013083Zinc finger, RING/FYVE/PHD-type
PROSITE profilePS5001611.208217274IPR019787Zinc finger, PHD-finger
PfamPF006281.5E-11219274IPR019787Zinc finger, PHD-finger
CDDcd155043.06E-27219271No hitNo description
SMARTSM002491.5E-9219272IPR001965Zinc finger, PHD-type
PROSITE patternPS013590220271IPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:1.10.10.605.3E-8562613IPR009057Homeodomain-like
SuperFamilySSF466891.24E-6569612IPR009057Homeodomain-like
PfamPF000469.1E-5576612IPR001356Homeobox domain
CDDcd000863.51E-7579612No 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: 615 aa     Download sequence    Send to blast
MPNDANEDGH LHHEIRENGN GKEVQKPSPQ TEKKRSNAKT KFSGSHRELV LGLPCSGQFD  60
IQLSKSSKSS KRLGGGGERK VLFSSHKSAQ KSKEAAGPSL VPANNKPVGR PKKRNKTMKK  120
GQVREDDEYT RIKKKLRYFL NRISYEQNLI DAYSLEGWKG SSLEKLRPEK ELERATQEIL  180
RRKLKIRDLF QHLDTLCAEG SLPESLFDSD GEISSEDIFC AKCGSKDLSV DNDIILCDGF  240
CDRGFHQYCL EPPLRKEDIP PDDEGWLCPG CDCKDDSLDL LNDSLGTKLS VSDSWEKIFP  300
EAAALLSGGD QNLNCDLPSD DSDDEEYNPD GLNDNENEED NSEESENEDG SSDESDFTSA  360
SDEMIESFKE GKDIMKDIMA LPSDDSEDDD YDPEAPTRDE DEIQESSNSD CTSDSEDIET  420
SFKGNESNQQ EKVTPLEDPG RKKFQLPCEA ISESDAVLDD GLAGVPKRRN VERLDYKKLY  480
DDEYENVPSS SSDDDDWDTT AKMGKENSES EDEGDTAPLK QSSSAEDHTS KKPRRKSKRA  540
DKNDTLKVRE QGPGENGCSG PSGEKSSSSA YKQTDPKAQR LYISFQENQY PDKATKESLA  600
KELRMTITQV RNFS*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1130136RIKKKLR
2530538KKPRRKSKR
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
PlantRegMapCarubv10013245m
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
TrEMBLR0HIK80.0R0HIK8_9BRAS; Uncharacterized protein
STRINGXP_006296599.10.0(Capsella rubella)
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]