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

Potri.008G037800.1

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

C2H2

Protein Properties

Length: 1622aa MW: 180459 Da PI: 6.0584

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.008G037800.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	11.2	0.0011	1530	1553	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +C+ Cgk Fs++ + +H+r+H Potri.008G037800.1 1530 RCTydGCGKKFSSHKYAIVHQRVH 1553 688889****************99 PP
2	zf-C2H2	11.5	0.00094	1589	1615	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C+ Cg sF+ s++ rH r+ H Potri.008G037800.1 1589 YQCKvdGCGLSFRFVSDFSRHRRKtgH 1615 99*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	1.1E-13	15	55	IPR003349	JmjN domain
PROSITE profile	PS51183	13.55	16	57	IPR003349	JmjN domain
Pfam	PF02375	5.0E-14	17	50	IPR003349	JmjN domain
SuperFamily	SSF51197	6.32E-26	296	462	No hit	No description
SMART	SM00558	1.1E-45	296	465	IPR003347	JmjC domain
PROSITE profile	PS51184	34.045	299	465	IPR003347	JmjC domain
Pfam	PF02373	1.1E-35	329	448	IPR003347	JmjC domain
SMART	SM00355	19	1506	1528	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	0.071	1529	1553	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	12.175	1529	1558	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.7E-5	1530	1557	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	9.34E-6	1530	1566	No hit	No description
PROSITE pattern	PS00028	0	1531	1553	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	9.1E-10	1558	1583	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0027	1559	1583	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.593	1559	1588	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1561	1583	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.23E-10	1569	1611	No hit	No description
Gene3D	G3DSA:3.30.160.60	3.4E-11	1584	1612	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.19	1589	1615	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.45	1589	1620	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1591	1615	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: 1622 aa Download sequence Send to blast
MGNVEIPKWL KGLPLAPEFR PTDTEFADPV AYISKIEKEA SAFGICKIIP PLPKPSKRYV 60 FSNLNRSLSK CPELGDDVDL SNVCSSSNGG LRDGGNDGEN RAVFTTRQQE LGQCVKKAKG 120 MVKENLQSGV HKQVWQSGEA YTLEQFESKS KAFARSLLGM LKEVNPLVIE ALFWKAASEK 180 PIYVEYANDV PGSGFGEPES HSRYFPRRRR KRASYQSYRR SRESPVCSTN DMDDVKNSHN 240 DEVKGVSIKN VPSLCLETTP RSSMASLTSF AEDNLMYSKQ KSVTATNDME GTAGWKLSNS 300 PWNLQVIARS PGSLTRFMPD DIPGVTSPMV YIGMLFSWFA WHVEDHELHS MNFLHTGSPK 360 TWYAVPGDYV FSFEEVIRTE AYGGNIDRLA ALSLLGEKTT LLSPKAIISS GIPCCRLVQN 420 PGEFVVTFPR AYHVGFSHGF NCGEAANFGT PQWLKVAKEA AVRRAAMNYL PMLSHQQLLY 480 LLTMSFVSRV PRSLLPGARS SRLRDRQREE RELSVKEAFL EDMLKENDIL SAFLEKNSTC 540 HAVIWNPDLL PCASKESHLL NITSTITTTP KQNASHNNFD VNRNCNENDL FKEMSLYMET 600 LDDLYMEEDD LSCDFQVDSG TLACVACGIL GFPFMSVLQP HEKASIELMP GEEPRVTRID 660 NVQPSLDSDS TGKGSVSDDH GPVKDYSVPL KDLPMPTGWN TSHKFLRPRI FCLEHGVQIE 720 ELLQSKGGAN LLIICHSDYQ KIKAHAYAIA EEIESPFNYN EVPLEAALKE DLNLINLAID 780 DEDHHECGED WTSKLGINLR YCVKIRKNSP SKKVQHALAL GGLFSDRSLT DFLNIKWQSR 840 RSRSRIKLNQ PFHPKPCKII EPDKDEMSGN KSDGLTVKKE EKLVQYTRRK YKVKIDYSTN 900 GLEGCSRRCF AEEVSGASGD DPDKYTEQTT VIYPCNIGIT RSGSAGFGFS PIEDPEMLHE 960 VKVLEAAGGL TLNSAPSQDA CSVLTATVAV KSVGGQIEDQ LLKESKNARN ICNVKASGTS 1020 EIEHQINASG GTSEKQDFYA TKCCSPFITV ANERFEMQRE DQVLGNVNMG ETCNMVSEGQ 1080 QRVLDDGDAS VDEVSDLANV ASLHVSPPPI GLRADVVVEN SFINNEVSPP VTLDDEVKKE 1140 LVTKNRTNGD QCSSSDDTLM NQPTTSLDER CGHEQETRAV QNKTQKEAEI KNGSNDEIVP 1200 SNVISVTNLV PIDESSEFHR ELHATVNLCN GMAFENGKQL VFQTTNDSNK ELISCSVAQM 1260 EINSSTASSE FSKLHRQAYA ENDLCSGSTL DTIVPPEIPT TDIRTVEELA SNSATINQEL 1320 SEASKEICAI QDSYACMDLE PEVEKEIHSS DGVTRDSEVQ KIHQGTSLIN EDIHVSARVI 1380 LVNQPPTPSP VIKCSNIDDK SCVGESMVTC NKFFSSQEIE SIESAVVDSR PTAGKGRKRK 1440 GEVEQLTENK FDSNGFIRSP CEGLRPRAGK DVGKSAEENP IPKRLKKPSN VSVSRSKRKE 1500 ITQRSYKCDL EGCRMRFETK AELQLHKGNR CTYDGCGKKF SSHKYAIVHQ RVHEDDRPLK 1560 CPWKGCTMSF KWAWARIEHI RVHTGEKPYQ CKVDGCGLSF RFVSDFSRHR RKTGHYLNTP 1620 D*

Sequence ? help Back to Top

Protein Sequence Length: 1622 aa Download sequence Send to blast

MGNVEIPKWL KGLPLAPEFR PTDTEFADPV AYISKIEKEA SAFGICKIIP PLPKPSKRYV  60
FSNLNRSLSK CPELGDDVDL SNVCSSSNGG LRDGGNDGEN RAVFTTRQQE LGQCVKKAKG  120
MVKENLQSGV HKQVWQSGEA YTLEQFESKS KAFARSLLGM LKEVNPLVIE ALFWKAASEK  180
PIYVEYANDV PGSGFGEPES HSRYFPRRRR KRASYQSYRR SRESPVCSTN DMDDVKNSHN  240
DEVKGVSIKN VPSLCLETTP RSSMASLTSF AEDNLMYSKQ KSVTATNDME GTAGWKLSNS  300
PWNLQVIARS PGSLTRFMPD DIPGVTSPMV YIGMLFSWFA WHVEDHELHS MNFLHTGSPK  360
TWYAVPGDYV FSFEEVIRTE AYGGNIDRLA ALSLLGEKTT LLSPKAIISS GIPCCRLVQN  420
PGEFVVTFPR AYHVGFSHGF NCGEAANFGT PQWLKVAKEA AVRRAAMNYL PMLSHQQLLY  480
LLTMSFVSRV PRSLLPGARS SRLRDRQREE RELSVKEAFL EDMLKENDIL SAFLEKNSTC  540
HAVIWNPDLL PCASKESHLL NITSTITTTP KQNASHNNFD VNRNCNENDL FKEMSLYMET  600
LDDLYMEEDD LSCDFQVDSG TLACVACGIL GFPFMSVLQP HEKASIELMP GEEPRVTRID  660
NVQPSLDSDS TGKGSVSDDH GPVKDYSVPL KDLPMPTGWN TSHKFLRPRI FCLEHGVQIE  720
ELLQSKGGAN LLIICHSDYQ KIKAHAYAIA EEIESPFNYN EVPLEAALKE DLNLINLAID  780
DEDHHECGED WTSKLGINLR YCVKIRKNSP SKKVQHALAL GGLFSDRSLT DFLNIKWQSR  840
RSRSRIKLNQ PFHPKPCKII EPDKDEMSGN KSDGLTVKKE EKLVQYTRRK YKVKIDYSTN  900
GLEGCSRRCF AEEVSGASGD DPDKYTEQTT VIYPCNIGIT RSGSAGFGFS PIEDPEMLHE  960
VKVLEAAGGL TLNSAPSQDA CSVLTATVAV KSVGGQIEDQ LLKESKNARN ICNVKASGTS  1020
EIEHQINASG GTSEKQDFYA TKCCSPFITV ANERFEMQRE DQVLGNVNMG ETCNMVSEGQ  1080
QRVLDDGDAS VDEVSDLANV ASLHVSPPPI GLRADVVVEN SFINNEVSPP VTLDDEVKKE  1140
LVTKNRTNGD QCSSSDDTLM NQPTTSLDER CGHEQETRAV QNKTQKEAEI KNGSNDEIVP  1200
SNVISVTNLV PIDESSEFHR ELHATVNLCN GMAFENGKQL VFQTTNDSNK ELISCSVAQM  1260
EINSSTASSE FSKLHRQAYA ENDLCSGSTL DTIVPPEIPT TDIRTVEELA SNSATINQEL  1320
SEASKEICAI QDSYACMDLE PEVEKEIHSS DGVTRDSEVQ KIHQGTSLIN EDIHVSARVI  1380
LVNQPPTPSP VIKCSNIDDK SCVGESMVTC NKFFSSQEIE SIESAVVDSR PTAGKGRKRK  1440
GEVEQLTENK FDSNGFIRSP CEGLRPRAGK DVGKSAEENP IPKRLKKPSN VSVSRSKRKE  1500
ITQRSYKCDL EGCRMRFETK AELQLHKGNR CTYDGCGKKF SSHKYAIVHQ RVHEDDRPLK  1560
CPWKGCTMSF KWAWARIEHI RVHTGEKPYQ CKVDGCGLSF RFVSDFSRHR RKTGHYLNTP  1620
D*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	2e-56	279	479	137	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	2e-56	279	479	137	346	Arabidopsis JMJ13
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed at low levels in cotyledons and leaves. Detected in inflorescences, stems, roots and siliques but not in shoot apical meristems or root tips. {ECO:0000269\|PubMed:15377760, ECO:0000269\|PubMed:18713399}.

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	Potri.008G037800.1

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_002312010.3	0.0	probable lysine-specific demethylase ELF6 isoform X2
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A2K1ZB88	0.0	A0A2K1ZB88_POPTR; Uncharacterized protein
STRING	POPTR_0010s23160.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF8031	30	34
Representative plant	OGRP7506	11	14

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	Potri.008G037800.1

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]