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

Csa08g060250.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 1329aa MW: 148732 Da PI: 7.4762

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa08g060250.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	12.9	0.00034	1240	1263	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +C+ Cgk F+ + +L+ H+r+H Csa08g060250.1 1240 RCTheGCGKKFRAHKYLVLHQRVH 1263 588889****************99 PP
2	zf-C2H2	11.4	0.001	1299	1325	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg sF+ s++ rH r+ H Csa08g060250.1 1299 YKCKveGCGLSFRFVSDYSRHRRKtgH 1325 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	7.3E-16	17	50	IPR003349	JmjN domain
SMART	SM00558	4.1E-45	264	430	IPR003347	JmjC domain
PROSITE profile	PS51184	34.949	264	430	IPR003347	JmjC domain
SuperFamily	SSF51197	6.04E-27	275	428	No hit	No description
Pfam	PF02373	7.4E-38	294	413	IPR003347	JmjC domain
SMART	SM00355	55	1216	1238	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	0.057	1239	1263	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	13.464	1239	1268	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	8.7E-8	1240	1268	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1241	1263	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	7.83E-11	1255	1297	No hit	No description
SMART	SM00355	0.009	1269	1293	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	12.424	1269	1298	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.5E-10	1269	1293	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1271	1293	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.02E-8	1287	1321	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.6E-10	1294	1322	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.33	1299	1325	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.286	1299	1328	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1301	1325	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1329 aa Download sequence Send to blast
MGNVEIPNWL KALPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV 60 FHNLNKSLLK CPELVSDVDI SKVCKEDRAV FTTRQQELGQ TVKKTKGEKS KCVSQRSGVK 120 QVWQSGGVYT LEQFEAKSKT FYKSQLGTVK EVSPVVVEAL FWKAASEKPI YIEYANDVPG 180 SAFGEPEGHF RHFRHRKRRG RGFYQRKTEI NGPSGKNSEN SSPKVEKAPL ASTSLSSQGQ 240 GSSKQKSTDI LDEMEGTAGW KLSNSSWNLQ TIARSPGSVT RFMPDDIPGV TSPMVYIGML 300 FSWFAWHVED HELHSMNYLH TGSPKTWYAV PCDYALEFEE VIRKNSYGRN IDQLAALTQL 360 GEKTTLVSPE MIVASGIPCC RVVQNPGEFV VTFPRSYHVG FSHGFNCGEA ANFGTPQWLN 420 VAKEAAVRRA AMNYLPMLSH QQLLYLLTIV PRSFLPGGRS SRLRDRQREE REFLVKKAFV 480 EDILNENKNL SALLREPSSR LVMWDPDLLP RHTALALAAV GDAATSAVSP PAVAKNEPEE 540 VQNKEKTTLL EELSLFMEKL NDVYYDEDDG LLNDFQVDSG TLPCVACGVL GFPFMSVVQP 600 SEEALKDLSE REGEIDAQEF TTLSSEKSQC EWKTSSRYIR PRIFCLEHTI ELQRLLQSRG 660 GLKFLIICHK DFQKFKAHAA IVAEEVKVPF SYDDVLLESA SQEELSLIDL AIEDEKNYNH 720 ALDWTSELGI NLRYCVKVRK NSPTKKIQHA LSLGGLFSDT SYMLDMSTIR WLQRKSRSKV 780 KPSSTSSFTP REHLEVKVNG KLGESLDSQA GRKEEKIIQY SRKKKSNPKL SAEQGQELAP 840 LAKSKDFDKT CNKNASKSHL DSAIRSELNN EIGDSGRVIG RNEKSFSKNP CSSSFTEAHD 900 QEHPESTIKF GSALDGNVTN RFSMVNGDSA GLSSVSREHR GQSMTSNNNG SNSGSQTILV 960 STGDNHDGPG KLPGDYVCSD VSVRGVQEAV EMSDQEFGEP RSTVTNIEDE QQSQMVQPTK 1020 REAVSGDHAQ VDRAEAVCTR ENLCSDIILH TEHSSAQVGM EIPEINTASE NMVVNMTHDG 1080 EPLESSDILS SSNRDQASSN GLQVPDDGLN MESEVSSSEN TKVIETPNPM GEAKMKWKIE 1140 SESETNDNLE SSIGFIRSPC EGLRSRGKRK ATCETSFKLT ETIDEEKKPI AKRLKKTPKA 1200 RSGSRHQEVP TTTHPNRCYV EGCKMTFESK AKLQTHKRNR CTHEGCGKKF RAHKYLVLHQ 1260 RVHNDERPFE CSWEGCSMTF KWQWARTEHF RLHTGERPYK CKVEGCGLSF RFVSDYSRHR 1320 RKTGHYVA*

Sequence ? help Back to Top

Protein Sequence Length: 1329 aa Download sequence Send to blast

MGNVEIPNWL KALPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV  60
FHNLNKSLLK CPELVSDVDI SKVCKEDRAV FTTRQQELGQ TVKKTKGEKS KCVSQRSGVK  120
QVWQSGGVYT LEQFEAKSKT FYKSQLGTVK EVSPVVVEAL FWKAASEKPI YIEYANDVPG  180
SAFGEPEGHF RHFRHRKRRG RGFYQRKTEI NGPSGKNSEN SSPKVEKAPL ASTSLSSQGQ  240
GSSKQKSTDI LDEMEGTAGW KLSNSSWNLQ TIARSPGSVT RFMPDDIPGV TSPMVYIGML  300
FSWFAWHVED HELHSMNYLH TGSPKTWYAV PCDYALEFEE VIRKNSYGRN IDQLAALTQL  360
GEKTTLVSPE MIVASGIPCC RVVQNPGEFV VTFPRSYHVG FSHGFNCGEA ANFGTPQWLN  420
VAKEAAVRRA AMNYLPMLSH QQLLYLLTIV PRSFLPGGRS SRLRDRQREE REFLVKKAFV  480
EDILNENKNL SALLREPSSR LVMWDPDLLP RHTALALAAV GDAATSAVSP PAVAKNEPEE  540
VQNKEKTTLL EELSLFMEKL NDVYYDEDDG LLNDFQVDSG TLPCVACGVL GFPFMSVVQP  600
SEEALKDLSE REGEIDAQEF TTLSSEKSQC EWKTSSRYIR PRIFCLEHTI ELQRLLQSRG  660
GLKFLIICHK DFQKFKAHAA IVAEEVKVPF SYDDVLLESA SQEELSLIDL AIEDEKNYNH  720
ALDWTSELGI NLRYCVKVRK NSPTKKIQHA LSLGGLFSDT SYMLDMSTIR WLQRKSRSKV  780
KPSSTSSFTP REHLEVKVNG KLGESLDSQA GRKEEKIIQY SRKKKSNPKL SAEQGQELAP  840
LAKSKDFDKT CNKNASKSHL DSAIRSELNN EIGDSGRVIG RNEKSFSKNP CSSSFTEAHD  900
QEHPESTIKF GSALDGNVTN RFSMVNGDSA GLSSVSREHR GQSMTSNNNG SNSGSQTILV  960
STGDNHDGPG KLPGDYVCSD VSVRGVQEAV EMSDQEFGEP RSTVTNIEDE QQSQMVQPTK  1020
REAVSGDHAQ VDRAEAVCTR ENLCSDIILH TEHSSAQVGM EIPEINTASE NMVVNMTHDG  1080
EPLESSDILS SSNRDQASSN GLQVPDDGLN MESEVSSSEN TKVIETPNPM GEAKMKWKIE  1140
SESETNDNLE SSIGFIRSPC EGLRSRGKRK ATCETSFKLT ETIDEEKKPI AKRLKKTPKA  1200
RSGSRHQEVP TTTHPNRCYV EGCKMTFESK AKLQTHKRNR CTHEGCGKKF RAHKYLVLHQ  1260
RVHNDERPFE CSWEGCSMTF KWQWARTEHF RLHTGERPYK CKVEGCGLSF RFVSDYSRHR  1320
RKTGHYVA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	2e-55	244	444	137	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	2e-55	244	444	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	Csa08g060250.1

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_010423602.1	0.0	PREDICTED: probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A178UAR7	0.0	A0A178UAR7_ARATH; ELF6
STRING	XP_010423602.1	0.0	(Camelina sativa)

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]