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 HL.SW.v1.0.G019193.1
Organism
Humulus lupulus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Cannabaceae; Humulus
Family C2H2
Protein Properties Length: 1601aa    MW: 177698 Da    PI: 6.9829
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
HL.SW.v1.0.G019193.1genomeHOPBASEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H210.70.001714881513123
                            EEET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                            ++C    C +sF +k +L+ H r+ +
  HL.SW.v1.0.G019193.1 1488 HRCDieGCRMSFDTKAELMLHKRNrC 1513
                            789999****************9876 PP
2zf-C2H211.30.001115711597123
                            EEET..TTTEEESSHHHHHHHHHH..T CS
               zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                            y+C+   Cg sF+  s++ rH r+  H
  HL.SW.v1.0.G019193.1 1571 YQCKieGCGLSFRFVSDYSRHRRKtgH 1597
                            99*********************9777 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005451.8E-131555IPR003349JmjN domain
PROSITE profilePS5118313.551657IPR003349JmjN domain
PfamPF023754.2E-141750IPR003349JmjN domain
SuperFamilySSF511979.06E-27288454No hitNo description
SMARTSM005586.5E-44288457IPR003347JmjC domain
PROSITE profilePS5118434.204291457IPR003347JmjC domain
PfamPF023731.3E-35321440IPR003347JmjC domain
Gene3DG3DSA:3.30.160.608.3E-514801510IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003551514881510IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.7815111540IPR007087Zinc finger, C2H2
SMARTSM003550.6215111535IPR015880Zinc finger, C2H2-like
SuperFamilySSF576675.35E-515111548No hitNo description
Gene3DG3DSA:3.30.160.602.7E-415121539IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028015131535IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.3E-1015401565IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.001815411565IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.94615411570IPR007087Zinc finger, C2H2
PROSITE patternPS00028015431565IPR007087Zinc finger, C2H2
SuperFamilySSF576676.11E-1015511593No hitNo description
Gene3DG3DSA:3.30.160.606.3E-1115661594IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.36915711600IPR007087Zinc finger, C2H2
SMARTSM003550.2715711597IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028015731597IPR007087Zinc 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: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:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1601 aa     Download sequence    Send to blast
MGNVEVPKWL EELPLAPEFR PTDTEFADPI AYISKIEKEA GAFGICKIIP PLPKPSKKYV  60
FNNLNKSLLK SPELGSHGNS VNNRSSSKIA SLDGSNEEEV RAVFTTRQQE LGQNVKKGKG  120
AVQNSSSGVH KQVWQSGEIY TLEQFETKSR TFAKSQLGMI KEVSPLVIEA MFWKAASEKP  180
IYVEYANDVP GSGFGEPEGQ FRYFHRRRRK RNFYRRSREG NSCKSSEVVT NGITISKTDD  240
VDVSHINGSD VCKTPTSIPI LPFNETSQSS KKKSQYSSYD KEGTAGWKLS NSPWNLQVIS  300
RSPGSLTRFM PDDIPGVTSP MVYIGMLFSW FAWHVEDHEL HSMNYLHTGS SKTWYAVPGD  360
YALAFEEVVR SEAYGGNIDR LAALTLLGEK TTLVSPEVVA ASDIPCCRLI QNPGEFVVTF  420
PRAYHVGFSH GFNCGEAANF GTPQWLKVAK EAAVRRAAMN YLPMLSHQQL LYLLTMSFMS  480
RVPRSLLPGV RSSRLKDRQK EGREFLVKKA FIEDILNENN TLSIVLEKDS SYRAVLWNPD  540
ILTYPSKEIL SPTAGAIAST SSTVTENTPL DYGKRDNEQN NLLDEMNLYM ENLNDLYLGS  600
DDLSCDLQVD SGALACVACG ILGFPFMSVV QPSKKASLEL LYDNHLLVQD CPGVSGYLNC  660
FSSLDLDATN NASITENVST VSNPPSAMDL PVPSVIKFDH AQNACNKFLR PRSFCLEHAV  720
EIIDMLRGKG GAEVLVICHS DYQKIKAHAT AIAEEIGKPF NYKEVPLDIA SKEDLNLIDN  780
AIDDEHDECG KDWTSKLGIN LRHCVKVRRN SSSKQVRHAL TLGGLFSDKC SSSDFMHLKW  840
HLRRSRSKKI YVKPCDSAQL KKVVGESSFT VKKEKILLQY SRRKFNRKPG GSIGAGKFCG  900
RHATGGESDE LARRASETVN DVGNSISCKF SALVRISETH NENQTPEATL VSKCTKVSCG  960
SVDNQILKEM NMDSQACHVA SSNASEMQDQ LNVQTQDVSI TGKPCEKQEA CPFSHDTKKI  1020
GDLHMVGQFN KTDGANLGSE GHCNVKVGEE GVLNSDHPNM TTSHVIEAHI DNLKRHIKNA  1080
VVKNVSMTAE VCDSVSVDKE VALVVHATRI NDEEPVSCNS TVTKDHIVTS KEECFQCSGE  1140
ICSVEDPSNG KALKVKPEEE IKTRINKYLP ASVEETSEAP CETHSTEDFN NRSCLENKPE  1200
QEREAVISET IPVLIEETFE FLSDLCAAAK LCCAITSGQV PKQKVGTSDG GSEELASSSV  1260
TQIEVHHHCV SMEEHSDVPR GNSGEDDLGA DVTSDNGFHQ EALMKNGEQR SVSLVTQAVG  1320
HLTPVSVGES ETPRSHSKEH LVDGSTLDDK KRKKETSTLP TMISFQKCSR VRRETHTTED  1380
LCNGSEVCSS QDDRVLDNES NDIDTCSNPV KGRKRKKEMD LLTENKFSCN GFMRSPCEGL  1440
RPRASKDATS CGTDTLREVE GKPAAKVKET SNVRGPPKDK KENSRKPHRC DIEGCRMSFD  1500
TKAELMLHKR NRCPHEGCGK RFSSHKYAMI HHRVHDDQRP LKCPWEGCSM SFKWAWARTE  1560
HIRVHTGERP YQCKIEGCGL SFRFVSDYSR HRRKTGHYVN *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A1e-56280471146346Transcription factor jumonji (Jmj) family protein
6ip4_A1e-56280471146346Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
114121416RKRKK
214121417RKRKKE
Functional Description ? help Back to Top
Source Description
UniProtActs probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:19946624}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024031706.10.0probable lysine-specific demethylase ELF6
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLA0A2P5D4210.0A0A2P5D421_TREOI; TFIIH C1-like domain containing protein
STRINGXP_010112224.10.0(Morus notabilis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF80313034
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.10.0C2H2 family protein
Publications ? help Back to Top
  1. Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C
    Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A.
    PLoS ONE, 2013. 8(7): p. e67987
    [PMID:23976921]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Crevillén P, et al.
    Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state.
    Nature, 2014. 515(7528): p. 587-90
    [PMID:25219852]
  4. Yang H,Howard M,Dean C
    Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9369-74
    [PMID:27482092]