PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Neem_10291_f_1

Organism

Azadirachta indica

Taxonomic ID

124943

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_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	11.4	0.00097	1507	1530	2	23
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

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	5.4E-14	19	59	IPR003349	JmjN domain
PROSITE profile	PS51183	13.55	20	61	IPR003349	JmjN domain
Pfam	PF02375	2.0E-14	21	54	IPR003349	JmjN domain
SuperFamily	SSF51197	3.02E-23	295	488	No hit	No description
SMART	SM00558	8.3E-36	299	492	IPR003347	JmjC domain
PROSITE profile	PS51184	31.532	302	492	IPR003347	JmjC domain
Pfam	PF02373	6.8E-33	332	448	IPR003347	JmjC domain
SMART	SM00355	31	1483	1505	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	12.445	1506	1535	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.046	1506	1530	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	8.4E-7	1507	1530	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1508	1530	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	8.92E-10	1524	1564	No hit	No description
Gene3D	G3DSA:3.30.160.60	2.4E-6	1531	1555	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0016	1536	1560	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.946	1536	1565	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1538	1560	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.7E-9	1556	1578	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009741	Biological Process	response to brassinosteroid
GO:0009826	Biological Process	unidimensional cell growth
GO:0033169	Biological Process	histone H3-K9 demethylation
GO:0048577	Biological Process	negative regulation of short-day photoperiodism, flowering
GO:0048579	Biological Process	negative regulation of long-day photoperiodism, flowering
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal 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

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

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	2e-53	282	506	137	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	2e-53	282	506	137	346	Arabidopsis JMJ13
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	1401	1409	RKGRKRKRE

Functional Description ? help Back to Top
Source	Description
UniProt	Acts 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
Refseq	XP_006436450.1	0.0	probable lysine-specific demethylase ELF6
Refseq	XP_006485645.1	0.0	probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	V4TDP1	0.0	V4TDP1_9ROSI; Uncharacterized protein
STRING	XP_006485645.1	0.0	(Citrus sinensis)
STRING	XP_006436450.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11520	27	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G04240.1	0.0	C2H2 family protein

Publications ? help Back to Top
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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Crevillén P, et al. Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state. Nature, 2014. 515(7528): p. 587-90 [PMID:25219852] 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]