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

Cucsa.137560.1

Common Name

Csa_6G405990

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

C2H2

Protein Properties

Length: 1180aa MW: 132697 Da PI: 7.4277

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.137560.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	13.9	0.00016	1064	1089	1	23
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 ykC C +sF++k +L+ H r+ + Cucsa.137560.1 1064 YKCDleGCRMSFKTKAELTLHKRNqC 1089 99********************9876 PP
2	zf-C2H2	10.8	0.0016	1088	1111	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +Cp Cgk+Fs++ + + H+r+H Cucsa.137560.1 1088 QCPheGCGKRFSSHKYAMFHQRVH 1111 69999*****************99 PP
3	zf-C2H2	11.5	0.0009	1147	1173	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg sF+ s++ rH r+ H Cucsa.137560.1 1147 YKCKveGCGLSFRFVSDYSRHRRKtgH 1173 99*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	1.3E-13	15	55	IPR003349	JmjN domain
PROSITE profile	PS51183	13.716	16	57	IPR003349	JmjN domain
Pfam	PF02375	1.2E-14	17	50	IPR003349	JmjN domain
SMART	SM00558	6.8E-33	273	430	IPR003347	JmjC domain
SuperFamily	SSF51197	4.67E-21	274	415	No hit	No description
PROSITE profile	PS51184	28.939	276	446	IPR003347	JmjC domain
Pfam	PF02373	1.7E-30	306	415	IPR003347	JmjC domain
SMART	SM00355	7.7	1064	1086	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	7.91E-6	1086	1124	No hit	No description
SMART	SM00355	0.51	1087	1111	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	12.009	1087	1116	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.0E-4	1088	1115	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1089	1111	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	5.0E-10	1116	1141	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.946	1117	1146	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0016	1117	1141	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1119	1141	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.95E-10	1127	1169	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.0E-11	1142	1170	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.949	1147	1178	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.33	1147	1173	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1149	1173	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: 1180 aa Download sequence Send to blast
MGSLEIPKWL KGLPYAPEFR PTDTEFSDPI AYISKIEKEA SAFGICKIIP PFPKPSKKYV 60 VSNLNKSLLR STELSRALNG AKEGDVRAVF TTRHQELGQS VKKTKGVVQN PQSGVHKQVW 120 QSGEIYTLEQ FESKSKVFAR SVLSGIKEPS PLVVESLFWK AASDKPIYVE YANDVPGSAF 180 GEPEGKFRYF HRRRRKRNFY HRSKELSSEP KGEEMETLTD SLCRDSGGIS NRNDLNTSSE 240 MLKPSTSTED VSHNSRGKSS DSCINMEGTA GWRLSNSPWN LQVIARSPGS LTRYMPDDIP 300 GVTSPMVYIG MLFSWFAWHV EDHELHSMNF LHVGSPKTWY SIPGDQAFAF EEVVRTQAYG 360 GSVDHLAALT LLGEKTTLLS PEIVIASGIP CCRLIQNPGE FVVTFPRAYH VGFSHVAFPM 420 FVLFASLDLR VPRSLLPGVR SSRLRDRQKE ERELMVKKGF VEDILRENNM LSVLLEKESS 480 CRAVLWNPDM LSYSSNSQVA NTNSAVATSP RENVSCSHME SIDDKVKNVQ NFIDEMALDL 540 ETMNDIYLES DDLSCDFQVD SGTLACVACG ILGFPFMSVV QPSEKTSKEL YVDHLAIHKR 600 GGVFGPKDAH CSSAPDVNCL SENLSVASIP KFENGWNAFN YHKIKANAVA IAEEIGNNFV 660 YNDVRLDIAS EEDLRLIDLA VDEDRDECRE DWTSRLGINL RHCIKVRKSS PTKQVQHALA 720 LGGLFLTRDH GFNLSALNWL SKRSRSKKLN HLQHSKPFQS MPLKDEVGGE KSDCRLVKSE 780 EKFFQYYRRN KKSGNSTACD GTAGDGNVGE EIEIANRIKY KTEDSCSSIP IKLQHCSAIP 840 IHGQFSHLDD RTGREMNSTS RSNESEPNLT NTGTPDVATS NSRDRTPEIS KVVCETTNLC 900 NAVRSNEAEV EIQSVSGVDL IAQQSSCLAD EKSIEYLGSQ EDRDDFSDTS LISTRVENTP 960 TEPRTPMDEP GSNTCVLGES CPMDIEKRKR KREEELLIEN EFSSFDFIRS PCEGLRPRVV 1020 KNLTNRSGTD VNVAVEEKPE RNRVKKRSDS VTTTPKKETK KGYYKCDLEG CRMSFKTKAE 1080 LTLHKRNQCP HEGCGKRFSS HKYAMFHQRV HDDDRPLKCP WKGCSMSFKW AWARTEHIRV 1140 HTGERPYKCK VEGCGLSFRF VSDYSRHRRK TGHYVDQPA*

Sequence ? help Back to Top

Protein Sequence Length: 1180 aa Download sequence Send to blast

MGSLEIPKWL KGLPYAPEFR PTDTEFSDPI AYISKIEKEA SAFGICKIIP PFPKPSKKYV  60
VSNLNKSLLR STELSRALNG AKEGDVRAVF TTRHQELGQS VKKTKGVVQN PQSGVHKQVW  120
QSGEIYTLEQ FESKSKVFAR SVLSGIKEPS PLVVESLFWK AASDKPIYVE YANDVPGSAF  180
GEPEGKFRYF HRRRRKRNFY HRSKELSSEP KGEEMETLTD SLCRDSGGIS NRNDLNTSSE  240
MLKPSTSTED VSHNSRGKSS DSCINMEGTA GWRLSNSPWN LQVIARSPGS LTRYMPDDIP  300
GVTSPMVYIG MLFSWFAWHV EDHELHSMNF LHVGSPKTWY SIPGDQAFAF EEVVRTQAYG  360
GSVDHLAALT LLGEKTTLLS PEIVIASGIP CCRLIQNPGE FVVTFPRAYH VGFSHVAFPM  420
FVLFASLDLR VPRSLLPGVR SSRLRDRQKE ERELMVKKGF VEDILRENNM LSVLLEKESS  480
CRAVLWNPDM LSYSSNSQVA NTNSAVATSP RENVSCSHME SIDDKVKNVQ NFIDEMALDL  540
ETMNDIYLES DDLSCDFQVD SGTLACVACG ILGFPFMSVV QPSEKTSKEL YVDHLAIHKR  600
GGVFGPKDAH CSSAPDVNCL SENLSVASIP KFENGWNAFN YHKIKANAVA IAEEIGNNFV  660
YNDVRLDIAS EEDLRLIDLA VDEDRDECRE DWTSRLGINL RHCIKVRKSS PTKQVQHALA  720
LGGLFLTRDH GFNLSALNWL SKRSRSKKLN HLQHSKPFQS MPLKDEVGGE KSDCRLVKSE  780
EKFFQYYRRN KKSGNSTACD GTAGDGNVGE EIEIANRIKY KTEDSCSSIP IKLQHCSAIP  840
IHGQFSHLDD RTGREMNSTS RSNESEPNLT NTGTPDVATS NSRDRTPEIS KVVCETTNLC  900
NAVRSNEAEV EIQSVSGVDL IAQQSSCLAD EKSIEYLGSQ EDRDDFSDTS LISTRVENTP  960
TEPRTPMDEP GSNTCVLGES CPMDIEKRKR KREEELLIEN EFSSFDFIRS PCEGLRPRVV  1020
KNLTNRSGTD VNVAVEEKPE RNRVKKRSDS VTTTPKKETK KGYYKCDLEG CRMSFKTKAE  1080
LTLHKRNQCP HEGCGKRFSS HKYAMFHQRV HDDDRPLKCP WKGCSMSFKW AWARTEHIRV  1140
HTGERPYKCK VEGCGLSFRF VSDYSRHRRK TGHYVDQPA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6a57_A	3e-52	1064	1177	23	136	Lysine-specific demethylase REF6
6a58_A	3e-52	1064	1177	23	136	Lysine-specific demethylase REF6
6a59_A	3e-52	1064	1177	23	136	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}.

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	LN681821	0.0	LN681821.1 Cucumis melo genomic scaffold, anchoredscaffold00040.
GenBank	LN713257	0.0	LN713257.1 Cucumis melo genomic chromosome, chr_3.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011657498.1	0.0	PREDICTED: probable lysine-specific demethylase ELF6
Refseq	XP_011657499.1	0.0	PREDICTED: probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A0A0KHH8	0.0	A0A0A0KHH8_CUCSA; Uncharacterized protein
STRING	XP_008456504.1	0.0	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF8031	30	34

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	Cucsa.137560.1

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] 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]