PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.K001900.1.p
Common NameSORBI_K001900
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: 1419aa    MW: 157851 Da    PI: 7.3835
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.K001900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H213.40.0002412991322122
                         EEET..TTTEEESSHHHHHHHHHH CS
            zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt 22  
                         ++C    C++sFs++++L  H r 
  Sobic.K001900.1.p 1299 FSCDieGCDMSFSTQHDLSLHKRD 1322
                         899999***************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005456.3E-181758IPR003349JmjN domain
PROSITE profilePS5118314.6171859IPR003349JmjN domain
PfamPF023751.2E-141952IPR003349JmjN domain
SuperFamilySSF511971.22E-25116381No hitNo description
SMARTSM005581.1E-44195364IPR003347JmjC domain
PROSITE profilePS5118435.282195364IPR003347JmjC domain
PfamPF023736.0E-36228347IPR003347JmjC domain
SMARTSM003551112991321IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.88713221351IPR007087Zinc finger, C2H2
SMARTSM003551513221346IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028013241346IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.3E-1013491376IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.34413521381IPR007087Zinc finger, C2H2
SMARTSM003550.001513521376IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028013541376IPR007087Zinc finger, C2H2
SuperFamilySSF576674.55E-913621406No hitNo description
Gene3DG3DSA:3.30.160.603.0E-913771405IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.28413821413IPR007087Zinc finger, C2H2
SMARTSM003551.113821408IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028013841408IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1419 aa     Download sequence    Send to blast
MPPPAVETPE WLRNLPVAPE FRPTAAEFAD PIAYILKIEA EASRYGICKI VPPLAPPPRE  60
ATVERLKASF AANAASTAAG DVAAPAPTFP TRLQQVGFSA KNRRPASRRV WESGERYTLE  120
AFRAKARDIE IPRHAVPPKH ATQLQLEALF WGACAGKPFN VEYGNDMPGS GFAAPEELNL  180
DLEGAGGNAA LAARDVGETE WNMRLAPRAR GSLLQAMGRD VAGVTTPMLY VAMLYSWFAW  240
HVEDHELHSL NYLHFGKSKT WYGVPRDAML AFEDAVRVHG YADDLNAIMA FQILNEKTTV  300
LSPEVLLSAG VPCCRLVQNP GEFVITFPGA YHSGFSHGFN CGEATNIATP CWLQVAKEAA  360
IRRASTNSGP MVSHYQLLYQ LALSLHLREP KNSHMPRSSR LRDKKNEGER MIKEAFVGSV  420
IENNSFLSIL LDKSSCVIIP EIEFPLPSRA PEVTDKQGLI AGPCSISQQK AEEVYGDEID  480
EIEEAENMSE STTSSACSQR KFYETKFGTV NSTAFCLSTS DIKIGVIGKG RSHQEGGLLD  540
QGRLPCVQCG ILSYACVAII QPKEAAVQYV ISRECMSSSA IHREIMESDD TSNRMAIAHQ  600
QGYACETDDN TRQNVSAAQV SGRCRQLYSS STHGCTSALG LLASAYESSD SDEEAEVPNN  660
ISNNCENNDV ANGVPNIQSS GTSVQDPNTN LHLYEEENDS RVIASLMQPV EEKCIAMTPV  720
SMETNMIHLA DQGESLTSHE QWHAYLDFDD DLTASGVKAS PKTSLSTAKG AMETDALTLF  780
KYSKDSCRMH VFCLEHALET WTRLEQIGGA NIMLLCNSEY PRAEAAAKVI AEELGMKHAW  840
KDITFKKATS EDTGRIQLAL QDEDAEPTSS DWAVKMGINI YYSAKQSKSP LYSKQVPYNP  900
IIYKAFAQEN PDSFTDEEGQ RSGTTKKKVA GWWCGKNWMS TQVHPLLARE QVEQNHETVY  960
SKAIFSASSC DRMQEQSTRS TTLISRSSSK KISRRKEGDS VEKSRGKKKR NSASACDEAA  1020
LQYTVYDQPV DFDNHAKYED GDESEGVDAQ NTRQHQQHES RNKKSSSKRR KGNNRSNSFY  1080
ELHKDNGDID CRFVTDSTEN TSIGDWDNSP PQWCDVIAVK SSARLQGSKR FSKEKASDGL  1140
SNVNKKLLKM GKKMSNKKQK NDKTNKQFQE NRKKADIVDL LRDEDDGDEA TYTKWNEIPK  1200
QKTDDVRVKS RGKMQSGKKK VSKCQANDDL HNGGKEAKFS SDIEVCNRRD GTAVDNWEEI  1260
PKEKADEVKV KPKMHSGKKK TSKHQASDGL HDADKGAKFS CDIEGCDMSF STQHDLSLHK  1320
RDICPVKGCK KKFFCHKYLL QHRKVHLDER PLMCSFPGCK KTFKWPWART EHMRVHTGVR  1380
PYACTEPGCT QTFRFVSDFS RHKRKTGHSC DKKKKNGT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A4e-72104177380Transcription factor jumonji (Jmj) family protein
6ip4_A4e-72104177380Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
19931009RRKEGDSVEKSRGKKKR
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves and flag leaves. Expressed at low levels in roots, shoots, stems and panicles. {ECO:0000269|PubMed:24280387}.
Functional Description ? help Back to Top
Source Description
UniProtHistone demethylase that demethylates 'Lys-27' (H3K27me) of histone H3 with a specific activity for H3K27me3 and H3K27me2. No activity on H3K4me3, H3K9me3, H3K27me1 and H3K36me3. Involved in biotic stress response. May demethylate H3K27me3-marked defense-related genes and increase their basal and induced expression levels during pathogen infection. {ECO:0000269|PubMed:24280387}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.K001900.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By salt stress, abscisic acid (ABA), jasmonic acid (JA), the ethylene precursor ACC and infection by the bacterial pathogen Xanthomonas oryzae pv. oryzae. {ECO:0000269|PubMed:24280387}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9466830.0EU946683.1 Zea mays clone 322288 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021301716.10.0lysine-specific demethylase JMJ705
SwissprotQ5N7121e-165JM705_ORYSJ; Lysine-specific demethylase JMJ705
TrEMBLA0A109NDP30.0A0A109NDP3_SORBI; Uncharacterized protein
STRINGGRMZM2G431157_P010.0(Zea mays)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP67183035
Representative plantOGRP1475934
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G48430.11e-150relative of early flowering 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]