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 Carubv10016658m
Common NameCARUB_v10016658mg
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 SBP
Protein Properties Length: 918aa    MW: 102208 Da    PI: 6.2725
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10016658mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP1331e-41122199178
                      --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
              SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                      +Cqve+C adls++k+yhrrhkvCe+hska+++ v g++qrfCqqCsrfh l+efDe+krsCrrrLa+hn+rrrk+++
  Carubv10016658m 122 RCQVENCGADLSKVKDYHRRHKVCEMHSKATSAPVGGVMQRFCQQCSRFHVLEEFDEGKRSCRRRLAGHNKRRRKTNP 199
                      6**************************************************************************875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.107.7E-34117184IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.479120197IPR004333Transcription factor, SBP-box
SuperFamilySSF1036124.45E-39121200IPR004333Transcription factor, SBP-box
PfamPF031104.3E-31123196IPR004333Transcription factor, SBP-box
CDDcd002041.78E-7678806No hitNo description
Gene3DG3DSA:1.25.40.201.3E-7680819IPR020683Ankyrin repeat-containing domain
SuperFamilySSF484031.41E-7704806IPR020683Ankyrin repeat-containing domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 918 aa     Download sequence    Send to blast
MEARTEGGED GHGLFGFSGK RNVEWDLNDW KWDGDLFVAR QLNHGSSNSS SACSDEANVD  60
ITAKNKRRAV VTVTATEEGN LRDDDDAPKL SLNLGGGNCG DIEGNGAKKT KLGGGLQSRA  120
IRCQVENCGA DLSKVKDYHR RHKVCEMHSK ATSAPVGGVM QRFCQQCSRF HVLEEFDEGK  180
RSCRRRLAGH NKRRRKTNPA AIGDGTPTSN DQTSNYLLIT LLKILSNIHS NQSDQAGDQD  240
LLSHLLKSLV SQAGEHVVKN LVGLMQGGGG LQASQALLSL GHAPQEDIKH HSNVFGTPWQ  300
EVYASGSQER AVPDRSEKQV KVNDFDLNDI YIDSDNTTDI ERSSPPPTNP ATSFLDYHHD  360
SRHSSPPQTS THSDSASDQS PSSSSRDPQS HTDRIVFKLF GKEPNDFPVA LRGQILDWLA  420
HTPTDMESYI RPGCVVLTVY LRQDEASWEE LCCDLSFSLK RLLDLSDDPL WTDGWIYLRV  480
QNQLAFAFNG QVVLDTSLPL RSHDYSQIIT VRPLAVTRKA QFTVKGISLH RPGTRVLCAV  540
EGKYLVQEAT QGVMEESDDV QENHETDIVK FSCEIPITSG RGFMEIEDQG GISSSFFPFI  600
VSEDEDVCSE IRRLESTIEF TGTDSAMQAM DFIHELGWLL HRSELNSRFA ESDHNPEDLF  660
PLIRFKFLIE FSMDREWCAV IKKLLNILLE EGTVDLSPDA ALLELCLLHR AVRKNSKPMV  720
EMLLRFIPKK KNLTLSSLFR PDAAGPAGLT PLHIAAGKDG SEDVLDALTD DPGMIGTQAW  780
KKSRDNTGFT PEDYARLRGH FSYIHLVQRK LNAKPTAKEH VVVNIAESFS IEHKEEKRSL  840
VDSSSLKITQ IKQCKLCDCK RVFVRTQQRS VAYRPAMLSM VAIAAVCVCV ALLFKSCPEV  900
LYVFQPFRWE LLAYGTS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wj0_A2e-31120177360squamosa promoter-binding protein-like 12
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000269|PubMed:16554053}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00060PBMTransfer from AT3G60030Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10016658m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ1320960.0AJ132096.1 Arabidopsis thaliana mRNA for squamosa promoter binding protein-like 12.
GenBankBT0038170.0BT003817.1 Arabidopsis thaliana clone C105276 putative squamosa promoter binding protein 12 (At3g60030) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006290569.10.0squamosa promoter-binding-like protein 12 isoform X1
RefseqXP_023637934.10.0squamosa promoter-binding-like protein 12 isoform X1
SwissprotQ9S7P50.0SPL12_ARATH; Squamosa promoter-binding-like protein 12
TrEMBLR0FLY90.0R0FLY9_9BRAS; Uncharacterized protein
STRINGXP_006290569.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30302764
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G60030.10.0squamosa promoter-binding protein-like 12
Publications ? help Back to Top
  1. Jung S, et al.
    Synteny conservation between the Prunus genome and both the present and ancestral Arabidopsis genomes.
    BMC Genomics, 2006. 7: p. 81
    [PMID:16615871]
  2. Jorgensen SA,Preston JC
    Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis.
    Mol. Phylogenet. Evol., 2014. 73: p. 129-39
    [PMID:24508602]
  3. Chao LM, et al.
    Arabidopsis Transcription Factors SPL1 and SPL12 Confer Plant Thermotolerance at Reproductive Stage.
    Mol Plant, 2017. 10(5): p. 735-748
    [PMID:28400323]