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

Sp_038690_rweo.t1

Common Name

SOVF_038690

Organism

Spinacia oleracea

Taxonomic ID

3562

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Chenopodioideae; Anserineae; Spinacia

Family

C2H2

Protein Properties

Length: 1312aa MW: 146438 Da PI: 8.1169

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sp_038690_rweo.t1	genome	TBVR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	10.7	0.0016	1279	1305	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C+ Cg +F+ s++ rH r+ H Sp_038690_rweo.t1 1279 YQCKikGCGLTFRFVSDYSRHRRKtgH 1305 99*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	8.7E-13	16	56	IPR003349	JmjN domain
PROSITE profile	PS51183	13.134	17	58	IPR003349	JmjN domain
Pfam	PF02375	3.4E-13	18	51	IPR003349	JmjN domain
PROSITE profile	PS51184	33.926	289	458	IPR003347	JmjC domain
SMART	SM00558	2.7E-46	289	458	IPR003347	JmjC domain
SuperFamily	SSF51197	6.59E-27	290	457	No hit	No description
Pfam	PF02373	3.3E-37	322	441	IPR003347	JmjC domain
SMART	SM00355	30	1196	1218	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1198	1222	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	5.29E-5	1214	1255	No hit	No description
SMART	SM00355	1.2	1219	1243	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.926	1219	1248	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1221	1243	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	3.4E-8	1246	1273	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.19	1249	1273	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.783	1249	1278	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1251	1273	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.23E-9	1259	1301	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.2E-9	1274	1302	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.25	1279	1305	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.764	1279	1310	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1281	1305	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: 1312 aa Download sequence Send to blast
MMGNVKLPQW LKELPLAPEF RPTETEFADP IAYISKIEKE VGGFGICKVI PPLPKPSRRY 60 VFNNLNKTLL RSRELGLDVN FKEMGDSSKR VSQDKRNNNE NRAVFTTRQQ ELGKEGKRSR 120 GEVDASQPAA QKQVWESGEF YTLEQFESKS KEFRRSVLGT VKEVAPLAIE ALFWKAASEK 180 PMYVEYANDV PGSGFGEPEG LSGYLRACKK RRKMCGQGHG GSSYRRQRGV NDASVLCAGV 240 KGEVPVPCSS TLVELEKESV DLPTSSPDEI SQSTKLKADP ELEGTAGWKL SNCPWNLQVI 300 ARSAGSLTRF MLDDIPGVTS PMVYIGMLFS WFAWHVEDHE LHSLNFLHTG SPKTWYAIPG 360 EYAFAFEDVI HKQACGGDVD HLAALKLLGE KTTLLSPEMV VASGIPCCRL VQNPGEFVVT 420 FPRAYHVGFS HGFNCGEAAN FGTPQWLTIA KEAAVRRAAM DHLPMLSHQQ LLYLLTMSFI 480 LRVPRALLPG VRSSRLRNRL EEERELLVKK AFIEDVINEN HLLNTLLGKD SAFRAVLWHP 540 DSLPSLARDS LSQAGTILDV SVPTYKGGDE DIHHLTTYRR SLNGLYLDSN DVLSDFQVDS 600 GTLVCVACGI LGYPIMSVVQ PSKTASRTNL SSEKMSLFGA VRSSRQQALC HIQCRDTNND 660 GTWDTSRFLR PRIFCLEHAV QIEELLRPRG GANMLVICHS DYQKIKANAA AVAEELRTTL 720 NYKEVTLDFA SPEELKLIDR AIDDEQLTDF QEDWTTKLGI NLRFSVKTRR DCLPKKIEHA 780 LNIDYLLSIM APDSRISNIK WCSRKSRTKR VSNHRTLATY CDGNFSKKDE IIHISNSKEI 840 KGKILLQYSR RKYRNKSRNI SGAKHALGCS MECSTEGTDA DCGKIIDHNE QDTSGTPCFK 900 IVEGDSEEFD TSEIRVVECK EVETPTGNRE PASNRTSGAV IIETCTSASS DSNFLRIAGV 960 VEEPNLASED LDTENCSSSL ASAMPDARKS SNAGKDIGSQ HVCTAKASGL TIMCRPEELN 1020 DDQTGGDLRA GSISDHALCI AYSPEITGSS VPCKKLEVYA NPACNMTENL GGSETCKHDA 1080 TMMEVDMCNL PKDNLTGSSQ TGAWASSLSS TCKKQDNKLA NAKMTCGDRR KKQALHIEAY 1140 KSYVRSPCEG LRPRKNKDDS VDMVEMTSEK APTKKLKESL VSSASCNQVV GNKTGYRCNL 1200 EGCRIHFRTK VELLLHKHNQ CHHKGCRKSF RSHKYVVLHQ RVHDDERPLK CTWEGCIMTF 1260 KWAWARTEHF RLHTGERPYQ CKIKGCGLTF RFVSDYSRHR RKTGHYANQS TK

Sequence ? help Back to Top

Protein Sequence Length: 1312 aa Download sequence Send to blast

MMGNVKLPQW LKELPLAPEF RPTETEFADP IAYISKIEKE VGGFGICKVI PPLPKPSRRY  60
VFNNLNKTLL RSRELGLDVN FKEMGDSSKR VSQDKRNNNE NRAVFTTRQQ ELGKEGKRSR  120
GEVDASQPAA QKQVWESGEF YTLEQFESKS KEFRRSVLGT VKEVAPLAIE ALFWKAASEK  180
PMYVEYANDV PGSGFGEPEG LSGYLRACKK RRKMCGQGHG GSSYRRQRGV NDASVLCAGV  240
KGEVPVPCSS TLVELEKESV DLPTSSPDEI SQSTKLKADP ELEGTAGWKL SNCPWNLQVI  300
ARSAGSLTRF MLDDIPGVTS PMVYIGMLFS WFAWHVEDHE LHSLNFLHTG SPKTWYAIPG  360
EYAFAFEDVI HKQACGGDVD HLAALKLLGE KTTLLSPEMV VASGIPCCRL VQNPGEFVVT  420
FPRAYHVGFS HGFNCGEAAN FGTPQWLTIA KEAAVRRAAM DHLPMLSHQQ LLYLLTMSFI  480
LRVPRALLPG VRSSRLRNRL EEERELLVKK AFIEDVINEN HLLNTLLGKD SAFRAVLWHP  540
DSLPSLARDS LSQAGTILDV SVPTYKGGDE DIHHLTTYRR SLNGLYLDSN DVLSDFQVDS  600
GTLVCVACGI LGYPIMSVVQ PSKTASRTNL SSEKMSLFGA VRSSRQQALC HIQCRDTNND  660
GTWDTSRFLR PRIFCLEHAV QIEELLRPRG GANMLVICHS DYQKIKANAA AVAEELRTTL  720
NYKEVTLDFA SPEELKLIDR AIDDEQLTDF QEDWTTKLGI NLRFSVKTRR DCLPKKIEHA  780
LNIDYLLSIM APDSRISNIK WCSRKSRTKR VSNHRTLATY CDGNFSKKDE IIHISNSKEI  840
KGKILLQYSR RKYRNKSRNI SGAKHALGCS MECSTEGTDA DCGKIIDHNE QDTSGTPCFK  900
IVEGDSEEFD TSEIRVVECK EVETPTGNRE PASNRTSGAV IIETCTSASS DSNFLRIAGV  960
VEEPNLASED LDTENCSSSL ASAMPDARKS SNAGKDIGSQ HVCTAKASGL TIMCRPEELN  1020
DDQTGGDLRA GSISDHALCI AYSPEITGSS VPCKKLEVYA NPACNMTENL GGSETCKHDA  1080
TMMEVDMCNL PKDNLTGSSQ TGAWASSLSS TCKKQDNKLA NAKMTCGDRR KKQALHIEAY  1140
KSYVRSPCEG LRPRKNKDDS VDMVEMTSEK APTKKLKESL VSSASCNQVV GNKTGYRCNL  1200
EGCRIHFRTK VELLLHKHNQ CHHKGCRKSF RSHKYVVLHQ RVHDDERPLK CTWEGCIMTF  1260
KWAWARTEHF RLHTGERPYQ CKIKGCGLTF RFVSDYSRHR RKTGHYANQS TK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	9e-52	287	472	157	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	9e-52	287	472	157	346	Arabidopsis JMJ13
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	208	212	KKRRK

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021865914.1	0.0	probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A0K9RQW9	0.0	A0A0K9RQW9_SPIOL; Uncharacterized protein
STRING	XP_010695898.1	0.0	(Beta vulgaris)

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]