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

Csa13g006240.1

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: 1300aa MW: 145568 Da PI: 7.8198

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa13g006240.1	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	0.00033	1211	1234	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +C+ Cgk F+ + +L+ H+r+H Csa13g006240.1 1211 RCTheGCGKKFRAHKYLVLHQRVH 1234 588889****************99 PP
2	zf-C2H2	11.2	0.0011	1270	1296	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg sF+ s++ rH r+ H Csa13g006240.1 1270 YKCKveECGLSFRFVSDYSRHRRKtgH 1296 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	7.1E-16	17	50	IPR003349	JmjN domain
SMART	SM00558	3.0E-27	262	424	IPR003347	JmjC domain
PROSITE profile	PS51184	26.521	262	424	IPR003347	JmjC domain
SuperFamily	SSF51197	6.32E-19	273	397	No hit	No description
Pfam	PF02373	1.8E-31	292	397	IPR003347	JmjC domain
SMART	SM00355	55	1187	1209	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	13.464	1210	1239	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.057	1210	1234	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	8.6E-8	1211	1239	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.21E-7	1211	1243	No hit	No description
PROSITE pattern	PS00028	0	1212	1234	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	4.2E-10	1240	1264	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.021	1240	1264	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	12.113	1240	1269	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1242	1264	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.38E-10	1250	1292	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.7E-10	1265	1293	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	4.8	1270	1296	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.93	1270	1299	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1272	1296	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: 1300 aa Download sequence Send to blast
MGNVEIPNWL KALPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV 60 FHNLNKSLLK CPELVSDVDI SKVWKEDRAV FTTRQQELGQ TVKKSKGEKS KCVSQRSGVK 120 QVWQSGGVYT LEQFEAKSKT FYKSQLGTVK EVSPVVVEAL FWKAASEKPI YIEYANDVPG 180 SAFGEPEGHF RHFRHRKRRG RGFYQRKTEI NGPSGKNSGN SSPMVEKAPL ASTSLSSQGS 240 SKQKSTDILD EMEGTAGWKL SNSSWNLQTI ARSPGSVTRF MPDDIPGVTS PMVYIGMLFS 300 WFAWHVEDHE LHSMNYLHTG SPKTWYAVPC DYALEFEEVI RKNSYGRNID QLAALTQLGE 360 KTTLVSPEMI VASGIPCCRL VQNPGEFVVT FPRSYHWLNV AKEAAVRRAA MNYLPMLSHQ 420 QLLYLLTIVP RSFLPGGRSS RLRDRQREER EFLVKKAFVE DILNENKNLS ALLREPSSRL 480 VMWDPDSLPR HTALALAAVG GAVSPPAVAK NEPEEVENKE KTTLLEELSL FMEKLNDVYY 540 DDDDDGLLND FQVDSGTLPC VACGVLGFPF MSVVQPSEEA LKDLSERQGE IDAQEVTTLL 600 SEKSQCEWKT SSRYIRPRIF CLEHTIELQR LVQSRGGLKF LIICHKDFQK FKAHAAIVAE 660 EVKVPFSYDD VLLESASQEE LSLIDLAIED EKNYNHALDW TSELGINLRY CVKVRKNSPT 720 KKIQHALSLG GLFSDASYML DISSIRWLQR KTRSKAKPSS TSSFTPREHL EVKVDGKLGE 780 SVDSQAGRKE EKIIQYSRKK KSNPKLSAEQ GQELAPLAKS KDFDKTCNTN ASKSHLDSAI 840 RSELNNEIGD TGRVIGRNEK SFSKSPCSSS FTGALDQEHP EITIKFGSAL DGNVTNRFSM 900 VNGDSADLSS VSREHRGHSM TSNNNGSNSG SHVVASQTIL VSTGDNHDGP GKLSGDYVCS 960 DVSVRGVQEA VEMSDQEFGE PRSTVTNIED EQQSQKLQPT KREAVSGDHA QVERAEVIIR 1020 HTEHSSAQVG TEIPEINTAS ENMVFNMTHD GEPLESSAIL SSSNGDQASS NGLKVPDDEL 1080 NMESEVSSSG NTKVIETPNP MGEAKMKWKI KSESETNDNL ESSIGFIRSP CEGLRSRGKR 1140 KATCETSFKL TETSEEEKKF IAKRLKKTPK ARSGSRNQEV PTTTHPNRCY VEGCKMTFES 1200 KAKLQTHKRN RCTHEGCGKK FRAHKYLVLH QRVHNDERPF ECSWEGCLMT FKWQWARTEH 1260 LRLHTGERPY KCKVEECGLS FRFVSDYSRH RRKTGHYVA*

Sequence ? help Back to Top

Protein Sequence Length: 1300 aa Download sequence Send to blast

MGNVEIPNWL KALPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV  60
FHNLNKSLLK CPELVSDVDI SKVWKEDRAV FTTRQQELGQ TVKKSKGEKS KCVSQRSGVK  120
QVWQSGGVYT LEQFEAKSKT FYKSQLGTVK EVSPVVVEAL FWKAASEKPI YIEYANDVPG  180
SAFGEPEGHF RHFRHRKRRG RGFYQRKTEI NGPSGKNSGN SSPMVEKAPL ASTSLSSQGS  240
SKQKSTDILD EMEGTAGWKL SNSSWNLQTI ARSPGSVTRF MPDDIPGVTS PMVYIGMLFS  300
WFAWHVEDHE LHSMNYLHTG SPKTWYAVPC DYALEFEEVI RKNSYGRNID QLAALTQLGE  360
KTTLVSPEMI VASGIPCCRL VQNPGEFVVT FPRSYHWLNV AKEAAVRRAA MNYLPMLSHQ  420
QLLYLLTIVP RSFLPGGRSS RLRDRQREER EFLVKKAFVE DILNENKNLS ALLREPSSRL  480
VMWDPDSLPR HTALALAAVG GAVSPPAVAK NEPEEVENKE KTTLLEELSL FMEKLNDVYY  540
DDDDDGLLND FQVDSGTLPC VACGVLGFPF MSVVQPSEEA LKDLSERQGE IDAQEVTTLL  600
SEKSQCEWKT SSRYIRPRIF CLEHTIELQR LVQSRGGLKF LIICHKDFQK FKAHAAIVAE  660
EVKVPFSYDD VLLESASQEE LSLIDLAIED EKNYNHALDW TSELGINLRY CVKVRKNSPT  720
KKIQHALSLG GLFSDASYML DISSIRWLQR KTRSKAKPSS TSSFTPREHL EVKVDGKLGE  780
SVDSQAGRKE EKIIQYSRKK KSNPKLSAEQ GQELAPLAKS KDFDKTCNTN ASKSHLDSAI  840
RSELNNEIGD TGRVIGRNEK SFSKSPCSSS FTGALDQEHP EITIKFGSAL DGNVTNRFSM  900
VNGDSADLSS VSREHRGHSM TSNNNGSNSG SHVVASQTIL VSTGDNHDGP GKLSGDYVCS  960
DVSVRGVQEA VEMSDQEFGE PRSTVTNIED EQQSQKLQPT KREAVSGDHA QVERAEVIIR  1020
HTEHSSAQVG TEIPEINTAS ENMVFNMTHD GEPLESSAIL SSSNGDQASS NGLKVPDDEL  1080
NMESEVSSSG NTKVIETPNP MGEAKMKWKI KSESETNDNL ESSIGFIRSP CEGLRSRGKR  1140
KATCETSFKL TETSEEEKKF IAKRLKKTPK ARSGSRNQEV PTTTHPNRCY VEGCKMTFES  1200
KAKLQTHKRN RCTHEGCGKK FRAHKYLVLH QRVHNDERPF ECSWEGCLMT FKWQWARTEH  1260
LRLHTGERPY KCKVEECGLS FRFVSDYSRH RRKTGHYVA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6a57_A	2e-45	1188	1298	24	134	Lysine-specific demethylase REF6
6a58_A	2e-45	1188	1298	24	134	Lysine-specific demethylase REF6
6a59_A	2e-45	1188	1298	24	134	Lysine-specific demethylase REF6
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	Csa13g006240.1

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_010452318.1	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_010452318.1	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]