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 ONIVA03G03740.3
Organism
Oryza nivara
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family C2H2
Protein Properties Length: 1463aa    MW: 160200 Da    PI: 5.9773
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA03G03740.3genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.93.7e-0513531378123
                       EEET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                       ++C    C+++F +k +L+ H+r+ +
  ONIVA03G03740.3 1353 FQCDieFCDMTFETKAELRAHQRNiC 1378
                       899999*****************877 PP
2zf-C2H212.60.0004213781400323
                       ET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2    3 Cp..dCgksFsrksnLkrHirtH 23  
                       C+   Cgk+Fs++ +LkrH+ +H
  ONIVA03G03740.3 1378 CTdeSCGKRFSSHKYLKRHQCVH 1400
                       77778***************998 PP
3zf-C2H213.70.0001914361462123
                       EEET..TTTEEESSHHHHHHHHHH..T CS
          zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                       ykC+  dCg+sF+  s++ rH ++  H
  ONIVA03G03740.3 1436 YKCSapDCGQSFRYVSDYSRHRKKfnH 1462
                       99********************98666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005459.1E-132970IPR003349JmjN domain
PROSITE profilePS5118313.6053071IPR003349JmjN domain
PfamPF023754.3E-133164IPR003349JmjN domain
SuperFamilySSF511974.67E-25212380No hitNo description
SMARTSM005587.2E-41229384IPR003347JmjC domain
PROSITE profilePS5118435.092232384IPR003347JmjC domain
PfamPF023731.4E-28262367IPR003347JmjC domain
Gene3DG3DSA:3.30.160.602.1E-413471375IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501578.53813531375IPR007087Zinc finger, C2H2
SMARTSM003551213531375IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.00613761405IPR007087Zinc finger, C2H2
SMARTSM003552.313761400IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028013781400IPR007087Zinc finger, C2H2
SuperFamilySSF576671.38E-613781412No hitNo description
Gene3DG3DSA:3.30.160.604.8E-713821406IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.98E-1114001456No hitNo description
PROSITE profilePS5015711.96714061435IPR007087Zinc finger, C2H2
SMARTSM003556.6E-414061430IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.605.9E-1114071430IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028014081430IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.4E-1014311458IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.36514361463IPR007087Zinc finger, C2H2
SMARTSM003550.1414361462IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028014381462IPR007087Zinc 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: 1463 aa     Download sequence    Send to blast
MPPQPPPAAS ASASAPDPAV PAWLRGLPRA PEYRPTESEF ADPIAFLSRV EREAAAYGIC  60
KVIPPHPRPS RRFVFAHLNR SLVSSCDAPA PSPAAASDSS IPPSSSSPPP ASAAVFTTRH  120
QELGNPRRGR PTPQVLKQVW QSGERYTLDQ FESKSRAFSK THLAGLHEPT ALAVESLFWK  180
ASADRPIYIE YANDVPGSGF AAPVQLQRKK KQKRETAPMD EWEKSSGWRL SNSPWNLQAI  240
ARAPGSLTRF MPDDVPGVTS PMVYIGMLFS WFAWHVEDHD LHSLNFLHTG APKTWYAVPG  300
DRAVELEEVI RVHGYGGNTD RIASLAVLGE KTTLILVQYP GEFVVTFPRA YHVGFSHGFN  360
CGEAANFATP QWLKFAKEAA VRRAVMNYLP MLSHQQLLNP RELLSGIRTS RLRDRKKEDR  420
ELLVKQEFLQ DMISENELIC SFLGKKSVDN VVLWEPDLLP SLTALHPCSS CSKAPEKKGE  480
DGPRIGSTQS SSKDDSSSDG TACMTGTQSK GLSMDSKQAP EGEKLDTDDG DDLPFDLSID  540
SGSLTCVACG ILGYPFMAIL QPSRKALEEI SLVDKERYKL SCEKEICSNV LPCSPNDGSS  600
GCPLIANRSS SPVENANLSH QDVKPIRSDI SLMGKEFNGT LGKHIGTSCS CSSENTIHPY  660
GDTETPEKKI PSDCPGSELS KQSGRGDVNV PDVEGSEETI SWNTGCAFAR PRIFCLQHAL  720
EIEELLASKG GVHALIICHA DYVKLKALAI SIAEEIEFQF DYKDVALANA SKSNLHLINI  780
SIDDEGYEEE GTDWTSRMGL NLKHSSKIRK ETSESQEQPP LSFWGLFSKP SPISVVSNLK  840
WLCRKARTPY KVIGYASSPD VVATPDKVKP AVTKTQIDTS GNAHENIGSE QTLQQDCVLQ  900
ESNDVADMCK RPKVNDQDGH SLINIPIAVA EYPMMHQVCE RPVSVSACDD PICSFDSQDS  960
PTTVAVSAGK PTREQCGAES TELSTVKQFL DNGLIAEGGS MNFISNHEHL ESDNATSVCK  1020
DEQLQVQQDQ LAMVLCNNPN TELVAGELHG GAASSTLENE DSCGNTSYCS DTVLKNSKPD  1080
TDDQPETCDR SVVLVTPKSS CDQMISSSDR SCSLTLDCPV STDAAFSSEK LSMAHDLMGS  1140
ELQAVHNSKA EVAASLTDVK GAKLNSIHTA QLPHESPSSD FIISEGAQSA STTAIPRKNG  1200
TSMHTESNSI DILLGVLADE SKVSSGKDEV GKASLTLMTL AGNDQSADDV TQDEVAEITD  1260
PSHGFCASDI VSRSIGSSNR TNIICYARRK HKRKSGSEFN INSPQSLGSF VRSPCESLRP  1320
RTRPAIVEDM TNETKTAEAS TANKRKKAKV EAFQCDIEFC DMTFETKAEL RAHQRNICTD  1380
ESCGKRFSSH KYLKRHQCVH RDERPFKCPW DGCPMTFKWL WAQTEHIRVH TGERPYKCSA  1440
PDCGQSFRYV SDYSRHRKKF NHY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A2e-67234048352Transcription factor jumonji (Jmj) family protein
6ip4_A2e-67234048352Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1206213QRKKKQKR
2207214RKKKQKRE
312871293RRKHKRK
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCP0126110.0CP012611.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 3 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015630480.10.0lysine-specific demethylase SE14-like isoform X1
SwissprotQ10RP40.0SE14_ORYSJ; Lysine-specific demethylase SE14
TrEMBLA0A0E0GGW90.0A0A0E0GGW9_ORYNI; Uncharacterized protein
STRINGONIVA03G03740.20.0(Oryza nivara)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.11e-168C2H2 family protein