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 Sobic.001G501800.1.p
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family C2H2
Protein Properties Length: 1475aa    MW: 162476 Da    PI: 6.4388
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G501800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H213.80.0001813641389123
                            EEET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                            ++C    Cg++F ++ +L+ H r+ +
  Sobic.001G501800.1.p 1364 FQCDidLCGMTFETRAELNAHKRNiC 1389
                            899999****************9877 PP
2zf-C2H212.50.0004513891411323
                            ET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2    3 Cp..dCgksFsrksnLkrHirtH 23  
                            C+   Cgk+Fs++ +LkrH+ +H
  Sobic.001G501800.1.p 1389 CTdeSCGKRFSSHKYLKRHQCVH 1411
                            77778***************998 PP
3zf-C2H213.20.0002614471473123
                            EEET..TTTEEESSHHHHHHHHHH..T CS
               zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                            ykC+  dCg++F+  s++ rH ++  H
  Sobic.001G501800.1.p 1447 YKCSapDCGQTFRYVSDYSRHRKKfnH 1473
                            99********************98666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005454.5E-122667IPR003349JmjN domain
PROSITE profilePS5118313.4812768IPR003349JmjN domain
PfamPF023754.3E-132861IPR003349JmjN domain
SMARTSM005581.6E-47222391IPR003347JmjC domain
PROSITE profilePS5118434.798222391IPR003347JmjC domain
SuperFamilySSF511974.12E-27226387No hitNo description
PfamPF023732.0E-36255374IPR003347JmjC domain
SMARTSM003552913641386IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.1213641386IPR007087Zinc finger, C2H2
SMARTSM003552.313871411IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.38313871416IPR007087Zinc finger, C2H2
SuperFamilySSF576676.07E-613891424No hitNo description
PROSITE patternPS00028013891411IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.605.5E-613931417IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.0E-1014151469No hitNo description
SMARTSM003557.8E-414171441IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.0514171446IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.609.7E-1114181441IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028014191441IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.9E-1014421469IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.1214471473IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.28114471474IPR007087Zinc finger, C2H2
PROSITE patternPS00028014491473IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009826Biological Processunidimensional cell growth
GO:0033169Biological Processhistone H3-K9 demethylation
GO:0045814Biological Processnegative regulation of gene expression, epigenetic
GO:0048577Biological Processnegative regulation of short-day photoperiodism, flowering
GO:0048579Biological Processnegative regulation of long-day photoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0032452Molecular Functionhistone demethylase activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1475 aa     Download sequence    Send to blast
MSPPPAVATG GSGEPTVPAW LRGLPRAPEY RPTESEFADP IAFLSRVERE AAAYGICKVI  60
PPYPRPSRRF VFAHLNRSLV SSSEAVANPT TASGSSTTGP SLPESAAVFT TRHQELGTPR  120
RGRPPPQVLK QVWQSGEQYT LDQFEAKSRA FSKIHLAGLR EPTPLEVESL FWKASADRPI  180
YIEYANDVPG SGFAAPKQSR RHKKRRRESD QVEEGEKGSG WRLSGSPWNL QAIARAPGSL  240
TRFMPDDVPG VTSPMVYIGM LFSWFAWHVE DHELHSLNFL HTGAPKTWYA VPGDRASELE  300
EVIRVHGYGG NPDRLASLAV LGEKTTLMSP DVLVARGVPC CRLVQYPGEF VVTFPRAYHI  360
GFSHGFNCGE AANFATPQWL KFAKEAAVRR AVMNYLPMLS HQQLLYLLAV SFITRTPNVL  420
SGIRTSRLRD RRKEERELLV KQEFLQDMIS ENKLLCSFLE KKSIGHVVLW EPDLLPSSTS  480
IHSCFSGSKA PEKKSEDGCR IESSDRGPKD NSSDGRTHMI GAQTKFISGN SKSSDTSASV  540
DKANADTDDE DNLPFDLSID SGSLTCVACG ILGYPFMTIL QPTREALEGI SLARMSRYKM  600
SSEKDNCSNT IPCYPADSNF GCSFVPTTPS WPAEQQCLAT PLGQANISHQ NVNSHEDVCL  660
RENEPNGPVL QHNVISHSCR SENTLHSCSE RDKSENKIPE NSLGPEVSEQ AGKYDGDAQT  720
AESSDGTINW NASCTFARPR IFCLQHALEI EKLLEGKGGV HALIICHSDF VKLKALAISI  780
AEEIEFQFDC TDIPLANASK SDLHLINISI DDEGHEEDGR DWTSQMGLNL KYSAKLRKEK  840
SENQEQSPLS FGGLFSCPSP VSVVPNLKWL CKRARTPYTV IGIVRSSSAT ETPVELKPGV  900
ETGMVTNGNV CEDDSRQHTF RQSGLEQPGE LQDCDKPSCS EENDHGRHCL VNIPIAVAEY  960
PMMHQVREGP VNVSTCNDSI CSSGSLDSPP LASPVEVTRY QGCIQSTELS SSPAFSVRHF  1020
LNDESTSVEV SINCVRNGCL ESQGVTLGSR DECMQVQQDQ EKMGLCNNPI MTSVDSDLIE  1080
GLAVSEGKCV DTVSASLENE ERAKISYCSN TETKTSKSAI DNQVEIHHLG TGPVKLNSSF  1140
NEMSVPTDLM SDEPQVGSHS AVKAIEHQSN NSANLKHESP HIGFHMLEDT QVASMAAVPR  1200
HEGKSVDSGS NTFDILLGAL AEESKATDAP GKDEVGKASL TLMTLASNEP SVTDVRAVEV  1260
VETDTILGSA KDDKQVDLSD VVSRCIGSSN RTDIICYARR KHKRKRDSQS NTGSSQSHSS  1320
FIRSPCESLR PRTKPAVVEE SEWSRTSEAS SAKRGKRTKT VGSFQCDIDL CGMTFETRAE  1380
LNAHKRNICT DESCGKRFSS HKYLKRHQCV HSEMRPFKCP WEGCKMTFKW LWAQTEHIRV  1440
HTGERPYKCS APDCGQTFRY VSDYSRHRKK FNHY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A1e-71204278376Transcription factor jumonji (Jmj) family protein
6ip4_A1e-71204278376Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
112981304RRKHKRK
212991306RKHKRKRD
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.207240.0embryo| leaf| panicle
Functional Description ? help Back to Top
Source Description
UniProtHistone demethylase that demethylates 'Lys-4' (H3K4me) of histone H3. Involved in the control of flowering time. Has a suppressive effect on floral transition under long day conditions through the demethylation of H3K4me3 in the promoter region of the flower-promoting signal HD3B/RFT1. {ECO:0000269|PubMed:24759811}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G501800.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0616000.0BT061600.1 Zea mays full-length cDNA clone ZM_BFb0163K05 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002468494.20.0lysine-specific demethylase SE14
SwissprotQ10RP40.0SE14_ORYSJ; Lysine-specific demethylase SE14
TrEMBLA0A1B6QQG30.0A0A1B6QQG3_SORBI; Uncharacterized protein
STRINGAC149475.2_FGP0050.0(Zea mays)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP99393437
Representative plantOGRP75061114
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.10.0C2H2 family protein