PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Neem_10291_f_1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family C2H2
Protein Properties Length: 1596aa    MW: 177824 Da    PI: 6.4715
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_10291_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.40.0009715071530223
                      EET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2    2 kCp..dCgksFsrksnLkrHirtH 23  
                      +Cp   Cgk+Fs++ +   H+r+H
  Neem_10291_f_1 1507 RCPheGCGKRFSSHKYAIIHQRVH 1530
                      69999*****************99 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005455.4E-141959IPR003349JmjN domain
PROSITE profilePS5118313.552061IPR003349JmjN domain
PfamPF023752.0E-142154IPR003349JmjN domain
SuperFamilySSF511973.02E-23295488No hitNo description
SMARTSM005588.3E-36299492IPR003347JmjC domain
PROSITE profilePS5118431.532302492IPR003347JmjC domain
PfamPF023736.8E-33332448IPR003347JmjC domain
SMARTSM003553114831505IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.44515061535IPR007087Zinc finger, C2H2
SMARTSM003550.04615061530IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.4E-715071530IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028015081530IPR007087Zinc finger, C2H2
SuperFamilySSF576678.92E-1015241564No hitNo description
Gene3DG3DSA:3.30.160.602.4E-615311555IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.001615361560IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.94615361565IPR007087Zinc finger, C2H2
PROSITE patternPS00028015381560IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.7E-915561578IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
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: 1596 aa     Download sequence    Send to blast
MGNNSNNVEI PKWLKELPLA PEFHPTDTEF ADPIAYISRI EKEASAFGIC KIIPPLPKPS  60
KKYVFRNLNK SLLKCPELGS DVNLSEISNV AKMGCHESGN DGEVRAVFTT RHQELGQNVK  120
RIKGVASNEN PQLGVHKQVW QSGEVYTLEQ FESKSKAFAR SLLGIIREIS PLVIEALFWK  180
AASEKPIYVE YANDVPGSAF GEPEGQFRYF HRRRRKVTSW KSYRNRGRTD SKKNEIESSR  240
NSHNDQITDS SIKNDPTTSL ETPNLSTTSS TKPLDENSQP SRRKSVNAGN DVEGTAGWKL  300
SNSPWNLQVI ARSPGSLTRF MPDDIPGVTS PMVYIGMLFS WFAWHVEDHE LHSMNFLHTG  360
AAKTWYAVPG DYAFTFEEVI RNEAYGGNID RLAALSLLGE KTTLISPEVI VAAGIPCCRL  420
VQNPGEFVVT FPRAYHAGFS HEYLSGIQQQ FLEYQSIFKL SFSNLGFNCG EAANFGTPQW  480
LKVAKEAAVR RAAMNYLPML SHQQLLYLLT MSFISSGSFG PEVRSLSPTI STISEKALAL  540
WKFVDTNSLL VHPHGAKILI ARCSKFKAER SSKGRKRAVI LLGQESTLNA ILWNPDLLPC  600
QSKESQMLIA TDTVASAPEE NLLEVHSDRN DDQKNNLFDE MSLYMETLND LYVDDDDLSC  660
GFQIDSGALA CVACGILGFP FMSVVQMSER ASMEMLQDLV QEGTGIDGTA VKGSVSEDLL  720
LVPDVSVLPK DVPEPSTTKS NKRWNTSNKY LRPRIFCLEH AVQIEEMLRS KGGANILVIC  780
HSDYQKIKAH AAAVAEEIGN PFNYTDVPLD TASEADLCLI DLAIDDGESA EFREDWTSKL  840
GINLRHCVKI RKNSPSEQVQ HALSLGDLFS EKSLCSDFSK LTWQFRRARS KIKLNHPAHS  900
RPRQNIEIKI GEVMEEKKLD GIVVKKEEKL IQYSRRKFRL KPDLSTGTSR GRGRPRKLLP  960
EEVSAATSDK LDEHNRNSSK INIDNVGSSG SISAESFLSP NGMSEGLHEV QVLEATSDVS  1020
LNYSPSRVAD SLATATLAVD SIEQNETKTV KELNIKGSAC YEAACASSEM QQKTNNADLM  1080
DLKKQRGDQQ RVANSARLCD ACPPVGSLDA EIEDVAVDNS CMNSEIYGHM TSDNKVRQDV  1140
HTTIGNNNED PISCDDKLID QPPASTMEVF EDMTEMCAAE DSCKGVPVED NMQHESNNRT  1200
ETNEEFNSSS IPLENSEVRS KECVAADLCS VGTKEEAVSS SVTRIEVDQP SVLSVEGCLE  1260
VPRGIFVEED VGADGMQLEN QTTEANMDQL VSHSSLRLEE NQPIPASVGA CSEASNGIHA  1320
VENVSVDTTD NEQQKQNQTT NVTNKEPKPN SPARRNQPTP ALIRKYSRTR KESSSTEKLC  1380
NDNEREMDCN EPTVEDPSSS ARKGRKRKRE LEQITENKCD GSEFIRSPCE GLRPRAGKNA  1440
ANKSEVDVRK MAKEKPATKV MKKPSNVSVP CQDKKKTLKE GRHRCDLDGC RMSFETKREL  1500
SLHKNNRCPH EGCGKRFSSH KYAIIHQRVH DDERPLKCPW KGCSMSFKWA WARTEHIRVH  1560
TGERPYQCKF EGCGLSFRCC NIWIRVTRIL GPKRPN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A2e-53282506137346Transcription factor jumonji (Jmj) family protein
6ip4_A2e-53282506137346Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
114011409RKGRKRKRE
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006436450.10.0probable lysine-specific demethylase ELF6
RefseqXP_006485645.10.0probable lysine-specific demethylase ELF6
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLV4TDP10.0V4TDP1_9ROSI; Uncharacterized protein
STRINGXP_006485645.10.0(Citrus sinensis)
STRINGXP_006436450.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM115202731
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]