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

Spipo17G0043200

Organism

Spirodela polyrhiza

Taxonomic ID

29656

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela

Family

C2H2

Protein Properties

Length: 848aa MW: 94677 Da PI: 7.2967

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Spipo17G0043200	genome	MIPS/IBIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	11.6	0.00085	735	760	1	23
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 ++C C++ F++ +L+ H r+ + Spipo17G0043200 735 FQCDlqGCNMGFRTARELQLHRRNwC 760 89********************9877 PP
2	zf-C2H2	11.6	0.00086	818	844	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C+ Cg +F+ s++ rH r+ H Spipo17G0043200 818 YECKvaGCGLTFRFVSDFSRHRRRtgH 844 89*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	9.4E-13	15	56	IPR003349	JmjN domain
PROSITE profile	PS51183	14.118	16	57	IPR003349	JmjN domain
Pfam	PF02375	4.4E-15	17	50	IPR003349	JmjN domain
SuperFamily	SSF51197	1.79E-28	187	395	No hit	No description
SMART	SM00558	1.8E-46	230	399	IPR003347	JmjC domain
PROSITE profile	PS51184	35.25	233	399	IPR003347	JmjC domain
Pfam	PF02373	1.8E-36	263	382	IPR003347	JmjC domain
SMART	SM00355	9.5	735	757	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.97	758	787	IPR007087	Zinc finger, C2H2
SMART	SM00355	45	758	782	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	2.63E-5	759	795	No hit	No description
PROSITE pattern	PS00028	0	760	782	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.5E-4	760	786	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Gene3D	G3DSA:3.30.160.60	7.2E-11	787	812	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	12.632	788	817	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.8E-10	788	840	No hit	No description
SMART	SM00355	7.7E-4	788	812	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	790	812	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	3.8E-10	813	840	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.4	818	844	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.076	818	847	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	820	844	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: 848 aa Download sequence Send to blast
MGDAEVPGWL KSLPLAPVYR PTETEFADPI AFISRIEEEA AGYGICKVIP PIPRPSKKFV 60 LYNLKRSLSK SPELGDVADS GNPTRSPGEA VFTTRHQELG SRRTRLAVHK QVWQSGELYT 120 VEQFEAKSRV FARSQLGGAK CEDPLHVEAM FWKAVEEKPT YVEYANDVPG SGFCAPKEPF 180 RCCPSQQRRR RNFNQGVGKM AEQQDDPVSE SQPDVGSPSD DVWEGSAGWK LSNSPWNLQM 240 IAKSPGSLTR FMPDEVPGVT SPMVYIGMLF SWFAWHVEDH ELHSLNFLHT GSSKTWYSVP 300 GSYASKFEEA VRIQGYGGHV DQLVSFTLLG EKTTLLSPEV IVQEGIPCCR LVQNPGEFVV 360 TFPRAYHIGF SHGFNCGEAA NFATPKWLHV AKEAAVRRAT MNYLPMLSHQ QLLYMLTMSF 420 ISRVEAQEDG LKEEEEEEEK EDGDDDRAEV SGSEDVQAFY SGDGDLPCGL DVDSGTLTCT 480 ACGILGYPFM SVMQPRGKST SVPTGEGEVA DEKMPVTETT ANLGSEWDAS DKSLRPRIFC 540 LQHALEVWEL LQREGGAARV LIICHSDYLK IRAHAAAVAE EVGDRISPEE EVPLRSAAPA 600 ELSLVSISIE EEEHEEKGED WTSKMGLNLR NCVRLRKESP LSRERLRLDL GGAFSDEGRP 660 LPDASALKWL CRRTRTQQPR APAPDQSRET PPPVKKRRGL RPRGKHSAAK PPEAPPRQKR 720 RRGGQGGAAA AGGPFQCDLQ GCNMGFRTAR ELQLHRRNWC TFKGCGKRFI SHKYAVRHQC 780 VHADERPLRC PWKGCGMSFK WAWARTEHLR VHTGERPYEC KVAGCGLTFR FVSDFSRHRR 840 RTGHYSR*

Sequence ? help Back to Top

Protein Sequence Length: 848 aa Download sequence Send to blast

MGDAEVPGWL KSLPLAPVYR PTETEFADPI AFISRIEEEA AGYGICKVIP PIPRPSKKFV  60
LYNLKRSLSK SPELGDVADS GNPTRSPGEA VFTTRHQELG SRRTRLAVHK QVWQSGELYT  120
VEQFEAKSRV FARSQLGGAK CEDPLHVEAM FWKAVEEKPT YVEYANDVPG SGFCAPKEPF  180
RCCPSQQRRR RNFNQGVGKM AEQQDDPVSE SQPDVGSPSD DVWEGSAGWK LSNSPWNLQM  240
IAKSPGSLTR FMPDEVPGVT SPMVYIGMLF SWFAWHVEDH ELHSLNFLHT GSSKTWYSVP  300
GSYASKFEEA VRIQGYGGHV DQLVSFTLLG EKTTLLSPEV IVQEGIPCCR LVQNPGEFVV  360
TFPRAYHIGF SHGFNCGEAA NFATPKWLHV AKEAAVRRAT MNYLPMLSHQ QLLYMLTMSF  420
ISRVEAQEDG LKEEEEEEEK EDGDDDRAEV SGSEDVQAFY SGDGDLPCGL DVDSGTLTCT  480
ACGILGYPFM SVMQPRGKST SVPTGEGEVA DEKMPVTETT ANLGSEWDAS DKSLRPRIFC  540
LQHALEVWEL LQREGGAARV LIICHSDYLK IRAHAAAVAE EVGDRISPEE EVPLRSAAPA  600
ELSLVSISIE EEEHEEKGED WTSKMGLNLR NCVRLRKESP LSRERLRLDL GGAFSDEGRP  660
LPDASALKWL CRRTRTQQPR APAPDQSRET PPPVKKRRGL RPRGKHSAAK PPEAPPRQKR  720
RRGGQGGAAA AGGPFQCDLQ GCNMGFRTAR ELQLHRRNWC TFKGCGKRFI SHKYAVRHQC  780
VHADERPLRC PWKGCGMSFK WAWARTEHLR VHTGERPYEC KVAGCGLTFR FVSDFSRHRR  840
RTGHYSR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	7e-73	9	413	8	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	7e-73	9	413	8	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}.

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_021655776.1	0.0	probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A2U1QEP7	0.0	A0A2U1QEP7_ARTAN; JmjC domain-containing protein
STRING	ORGLA03G0037300.1	0.0	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP9939	34	37

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	Spipo17G0043200

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]