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

Bostr.2128s0023.1.p

Organism

Boechera stricta

Taxonomic ID

72658

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Boechereae; Boechera

Family

C2H2

Protein Properties

Length: 1342aa MW: 150138 Da PI: 6.9795

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bostr.2128s0023.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	13	0.00031	1253	1276	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +C+ Cgk F+ + +L+ H+r+H Bostr.2128s0023.1.p 1253 RCTheGCGKKFRAHKYLVLHQRVH 1276 588889****************99 PP
2	zf-C2H2	11.3	0.001	1312	1338	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg sF+ s++ rH r+ H Bostr.2128s0023.1.p 1312 YKCKveGCGLSFRFVSDYSRHRRKtgH 1338 99*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	1.9E-15	15	55	IPR003349	JmjN domain
PROSITE profile	PS51183	14.16	16	57	IPR003349	JmjN domain
Pfam	PF02375	7.4E-16	17	50	IPR003349	JmjN domain
SMART	SM00558	1.4E-44	259	428	IPR003347	JmjC domain
PROSITE profile	PS51184	33.553	262	428	IPR003347	JmjC domain
SuperFamily	SSF51197	9.34E-26	267	426	No hit	No description
Pfam	PF02373	5.4E-37	292	411	IPR003347	JmjC domain
SMART	SM00355	150	1229	1251	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	13.027	1252	1281	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.057	1252	1276	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.4E-7	1253	1281	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1254	1276	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.73E-10	1268	1310	No hit	No description
PROSITE profile	PS50157	12.695	1282	1311	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	3.1E-10	1282	1306	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0033	1282	1306	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1284	1306	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	5.35E-9	1300	1334	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-10	1307	1335	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	9.286	1312	1341	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.33	1312	1338	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1314	1338	IPR007087	Zinc finger, C2H2

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: 1342 aa Download sequence Send to blast
MGNVEIPNWL KVLPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV 60 FYNLNRSLLK CPELVSDVDI SKVCKEDRAV FTTRQQELGQ TVKKTKGEKS NSNSQRSGVK 120 QVWQSGGVYS LEQFETKSKT FYKSQLGTIK EVSPVVVEAL FWKAASEKPI YIEYANDVPG 180 SAFGEPEGHF RHFRQRKRRG RGFYQRKTEI NDPSGKNSEN SSPEVEKTPL ASTSLSSQDS 240 SKQKNMDILD EMEGTAGWKL SNSSWNLQKI ARSPGSVTRF MPDDIPGVTS PMVYIGMLFS 300 WFAWHVEDHE LHSMNYLHAG SPKTWYAVPC DYALDFEEVI RKNSYGRNID QLAALTQLGE 360 KTTLVSPEMI VASGIPCCRL VQNPGEFVVT FPRSYHVGFS HGFNCGEAAN FGTPQWLNVA 420 KEAAVRRAAM NYLPMLSHQQ LLYLLTMSFV SRVPRSFLPG GRSSRLRDRQ REEREFLVKK 480 AFVEDILNEN KNLSVLLREP GSRLVMWDPD LLPRHSALAL AAAGGAATSA VSPPAVAKNE 540 PEEGHSELQN KEKTTLLEEL SLFMEKLNDV YYYDDDDGLL NDFQVDSGTL PCVACGVLGF 600 PFMSVVQPSE KALKDLSEKQ GEIDAQEITT MSSEKSHCEW KTSSRYIRPR IFCLEHTIEL 660 QRLLQSRGGL KFFVICHKDF QKFKAHAAIV AEEVKVPFSY DDVLLESASQ EELSLIDLAI 720 EDEENYEHAR DWTSELGINL RYCVKVRKNS PSKKIQHALS LGGLFSDTNH ILDISTIRWL 780 QRKSRSKAKP SSSSSFTPRE HLDVKVDGKL GENLDSQAGK KEEKIIHYSR KKKLNPKLSA 840 EQGLELAPLA KSKDFDKICN KFANRSHLDS ATRSEMNNEI GDSGRVIGRN GVSFSKSPCS 900 SSFTETHDQE HPEITIKFGS ALDGNVTNSF SMVNGDSADL SFVSREHQGH SMTSNNNGSN 960 SGSHVVANQT ILVSTGDNHD GPRKLSGDYV CSDVSVRGVQ EAVEMSDQEF GEPRSTVTNI 1020 EDEQQSQMVQ PTKREAVSGD HAQVEGAEAV CTRENLCSDI ILHTEHSSAQ VGMEIPAIYT 1080 ASENMVVDMT HDSEPLESSD ILSSSNGDQA SSNGLQVPDD ELSMESEVSS SENTEVIEAP 1140 NAMGEAKKKQ KIESESETND NLESSIGFIR SPCEGLRSRG KKKATCETSF KLTETSDEEK 1200 KPIAKRLKKT PKARSGSHHQ EVPTTTHPNC CYLEGCKMTF ESKAKLQTHK RNRCTHEGCG 1260 KKFRAHKYLV LHQRVHNDDR PFECSWKGCS MTFKWQWART EHLRLHTGER PYKCKVEGCG 1320 LSFRFVSDYS RHRRKTGHYV A*

Sequence ? help Back to Top

Protein Sequence Length: 1342 aa Download sequence Send to blast

MGNVEIPNWL KVLPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV  60
FYNLNRSLLK CPELVSDVDI SKVCKEDRAV FTTRQQELGQ TVKKTKGEKS NSNSQRSGVK  120
QVWQSGGVYS LEQFETKSKT FYKSQLGTIK EVSPVVVEAL FWKAASEKPI YIEYANDVPG  180
SAFGEPEGHF RHFRQRKRRG RGFYQRKTEI NDPSGKNSEN SSPEVEKTPL ASTSLSSQDS  240
SKQKNMDILD EMEGTAGWKL SNSSWNLQKI ARSPGSVTRF MPDDIPGVTS PMVYIGMLFS  300
WFAWHVEDHE LHSMNYLHAG SPKTWYAVPC DYALDFEEVI RKNSYGRNID QLAALTQLGE  360
KTTLVSPEMI VASGIPCCRL VQNPGEFVVT FPRSYHVGFS HGFNCGEAAN FGTPQWLNVA  420
KEAAVRRAAM NYLPMLSHQQ LLYLLTMSFV SRVPRSFLPG GRSSRLRDRQ REEREFLVKK  480
AFVEDILNEN KNLSVLLREP GSRLVMWDPD LLPRHSALAL AAAGGAATSA VSPPAVAKNE  540
PEEGHSELQN KEKTTLLEEL SLFMEKLNDV YYYDDDDGLL NDFQVDSGTL PCVACGVLGF  600
PFMSVVQPSE KALKDLSEKQ GEIDAQEITT MSSEKSHCEW KTSSRYIRPR IFCLEHTIEL  660
QRLLQSRGGL KFFVICHKDF QKFKAHAAIV AEEVKVPFSY DDVLLESASQ EELSLIDLAI  720
EDEENYEHAR DWTSELGINL RYCVKVRKNS PSKKIQHALS LGGLFSDTNH ILDISTIRWL  780
QRKSRSKAKP SSSSSFTPRE HLDVKVDGKL GENLDSQAGK KEEKIIHYSR KKKLNPKLSA  840
EQGLELAPLA KSKDFDKICN KFANRSHLDS ATRSEMNNEI GDSGRVIGRN GVSFSKSPCS  900
SSFTETHDQE HPEITIKFGS ALDGNVTNSF SMVNGDSADL SFVSREHQGH SMTSNNNGSN  960
SGSHVVANQT ILVSTGDNHD GPRKLSGDYV CSDVSVRGVQ EAVEMSDQEF GEPRSTVTNI  1020
EDEQQSQMVQ PTKREAVSGD HAQVEGAEAV CTRENLCSDI ILHTEHSSAQ VGMEIPAIYT  1080
ASENMVVDMT HDSEPLESSD ILSSSNGDQA SSNGLQVPDD ELSMESEVSS SENTEVIEAP  1140
NAMGEAKKKQ KIESESETND NLESSIGFIR SPCEGLRSRG KKKATCETSF KLTETSDEEK  1200
KPIAKRLKKT PKARSGSHHQ EVPTTTHPNC CYLEGCKMTF ESKAKLQTHK RNRCTHEGCG  1260
KKFRAHKYLV LHQRVHNDDR PFECSWKGCS MTFKWQWART EHLRLHTGER PYKCKVEGCG  1320
LSFRFVSDYS RHRRKTGHYV A*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	1e-55	242	442	137	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	1e-55	242	442	137	346	Arabidopsis JMJ13
Search in ModeBase

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Bostr.2128s0023.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY664500	0.0	AY664500.1 Arabidopsis thaliana early flowering 6 (ELF6) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010490928.1	0.0	PREDICTED: probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	D7LXG8	0.0	D7LXG8_ARALL; Uncharacterized protein
STRING	Bostr.2128s0023.1.p	0.0	(Boechera stricta)

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

Link Out ? help Back to Top
Phytozome	Bostr.2128s0023.1.p

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]