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

evm.model.supercontig_53.94

Organism

Carica papaya

Taxonomic ID

3649

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica

Family

C2H2

Protein Properties

Length: 1173aa MW: 129846 Da PI: 5.9673

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm.model.supercontig_53.94	genome	ASGPB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.2	0.00013	1012	1036	1	23
EEET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirtH 23 ++C C +sF +k+ L++H r++ evm.model.supercontig_53.94 1012 HRCDleGCRMSFETKEALRVHKRNC 1036 789999*****************95 PP
2	zf-C2H2	13.3	0.00025	1095	1121	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykCp Cg sF+ s++ rH r+ H evm.model.supercontig_53.94 1095 YKCPveGCGLSFRFVSDFSRHRRKtgH 1121 9**********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00355	11	1012	1034	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	0.45	1035	1059	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.946	1035	1064	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	8.72E-6	1035	1071	No hit	No description
PROSITE pattern	PS00028	0	1037	1059	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	7.4E-6	1037	1063	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Gene3D	G3DSA:3.30.160.60	1.7E-9	1064	1089	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.012	1065	1089	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.365	1065	1094	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1067	1089	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	5.64E-11	1075	1118	No hit	No description
Gene3D	G3DSA:3.30.160.60	9.9E-12	1090	1118	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.072	1095	1121	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.616	1095	1126	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1097	1121	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045814	Biological Process	negative regulation of gene expression, epigenetic
GO:0048579	Biological Process	negative regulation of long-day photoperiodism, flowering
GO:0003676	Molecular Function	nucleic acid binding
GO:0032452	Molecular Function	histone demethylase activity
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1173 aa Download sequence Send to blast
MPLVPRSLLP GARSSRLRDR QKERREFLVK KAFIEDMLNE NKMLTILLGR EAAYRTVLWD 60 PDLLPCQSKE SRMASVTAAA SCALAENFSY IHSETNSNTK QNNLLEEMNL YMRTLNDLYL 120 NDDDLLSDFQ VDSGPLACVA CGILGFPFMS VVQPSEKTVT QLPAYHTLVQ EKPVASEHNN 180 PHSHPDVASI MKESTSAIFI VIRAIDTMTN MMLVSSGMPL IGERPRVFCL EHALQIEELL 240 QSKGGASVLV ICHRDYQKMK AHATAVAEEI GCSFNYNDVP SESASHEELD LINLAIDDEE 300 HDECGEDWTS KLDINLRWCV KARKNSLSKQ VHHALALGGL FLDKNPNSDF SNIKWQSRRS 360 RSKVRLNHSS QCEPCEGLEV KKDEQSGGKS DDVIVRKKET LIQYSRRSKF KSGCSREANR 420 VQDCPRKQTA EEVSDPICGN FVNLSKNISE SSLSNDGHSR SSSGMGFSPS KMPLMKHEKA 480 QVEQNIGMQL NSFLLRDAES LATTSEFVSR GQIESEPLEV LNMERQPCNL AIGDGSGVNH 540 EVKVSQGTNA KTANFCTEEC SGEHVIPGCA RFEMKHKDHI VVNNAWLTMP CQLVSVSGDG 600 GDMLMDEVSD KVKLAALESA VLPPENFEPG IEGIVVDMDN EAFNHVISVN EVQLEIPAGY 660 TSKVEEPNST DHASISQTTP ASIGENCEGT GEICTEENFC CSVSVENNLQ LTSDTSKEHS 720 IFDVDTLING PSTPLKESSE VPREICANLC KEVTLENKVH QWGIQNTHEG VVELVSSSVT 780 QMEVDHPTLL KEHSDVSRGT GAKLASDAKL QVGTQTSCTS NSILQMAESQ QIPVSVKTCS 840 NVPRGTLVSK ELSSDITIES ERQENNQNVK ISNEVHVSCS ATPIYQPILP PVHESSEGQS 900 GVRNVASLHD GNEGCEAENI ESSTVDPNSN RGKERKRKRG EEQKAENKLE NNIFIRSPCE 960 GLRPRNRKDE TSGSGIDSSK KVKEKVARRK TEECSKVEDP CGGKKEILKD RHRCDLEGCR 1020 MSFETKEALR VHKRNCCPYE GCGKKFSSHK YAVLHQRVHD DERPLKCTWK GCLMTFKWAW 1080 ARTEHMRLHT GERPYKCPVE GCGLSFRFVS DFSRHRRKTG HRSMGPSNSG SHGAGKKLTI 1140 VTLFVGGSDF CAAAAVDDDE DDDLLVFFKC SG*

Sequence ? help Back to Top

Protein Sequence Length: 1173 aa Download sequence Send to blast

MPLVPRSLLP GARSSRLRDR QKERREFLVK KAFIEDMLNE NKMLTILLGR EAAYRTVLWD  60
PDLLPCQSKE SRMASVTAAA SCALAENFSY IHSETNSNTK QNNLLEEMNL YMRTLNDLYL  120
NDDDLLSDFQ VDSGPLACVA CGILGFPFMS VVQPSEKTVT QLPAYHTLVQ EKPVASEHNN  180
PHSHPDVASI MKESTSAIFI VIRAIDTMTN MMLVSSGMPL IGERPRVFCL EHALQIEELL  240
QSKGGASVLV ICHRDYQKMK AHATAVAEEI GCSFNYNDVP SESASHEELD LINLAIDDEE  300
HDECGEDWTS KLDINLRWCV KARKNSLSKQ VHHALALGGL FLDKNPNSDF SNIKWQSRRS  360
RSKVRLNHSS QCEPCEGLEV KKDEQSGGKS DDVIVRKKET LIQYSRRSKF KSGCSREANR  420
VQDCPRKQTA EEVSDPICGN FVNLSKNISE SSLSNDGHSR SSSGMGFSPS KMPLMKHEKA  480
QVEQNIGMQL NSFLLRDAES LATTSEFVSR GQIESEPLEV LNMERQPCNL AIGDGSGVNH  540
EVKVSQGTNA KTANFCTEEC SGEHVIPGCA RFEMKHKDHI VVNNAWLTMP CQLVSVSGDG  600
GDMLMDEVSD KVKLAALESA VLPPENFEPG IEGIVVDMDN EAFNHVISVN EVQLEIPAGY  660
TSKVEEPNST DHASISQTTP ASIGENCEGT GEICTEENFC CSVSVENNLQ LTSDTSKEHS  720
IFDVDTLING PSTPLKESSE VPREICANLC KEVTLENKVH QWGIQNTHEG VVELVSSSVT  780
QMEVDHPTLL KEHSDVSRGT GAKLASDAKL QVGTQTSCTS NSILQMAESQ QIPVSVKTCS  840
NVPRGTLVSK ELSSDITIES ERQENNQNVK ISNEVHVSCS ATPIYQPILP PVHESSEGQS  900
GVRNVASLHD GNEGCEAENI ESSTVDPNSN RGKERKRKRG EEQKAENKLE NNIFIRSPCE  960
GLRPRNRKDE TSGSGIDSSK KVKEKVARRK TEECSKVEDP CGGKKEILKD RHRCDLEGCR  1020
MSFETKEALR VHKRNCCPYE GCGKKFSSHK YAVLHQRVHD DERPLKCTWK GCLMTFKWAW  1080
ARTEHMRLHT GERPYKCPVE GCGLSFRFVS DFSRHRRKTG HRSMGPSNSG SHGAGKKLTI  1140
VTLFVGGSDF CAAAAVDDDE DDDLLVFFKC SG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6a57_A	8e-50	1012	1121	23	132	Lysine-specific demethylase REF6
6a58_A	8e-50	1012	1121	23	132	Lysine-specific demethylase REF6
6a59_A	8e-50	1012	1121	23	132	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	evm.model.supercontig_53.94

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_021897769.1	0.0	probable lysine-specific demethylase ELF6 isoform X3
Swissprot	Q6BDA0	1e-109	ELF6_ARATH; Probable lysine-specific demethylase ELF6
STRING	evm.model.supercontig_53.94	0.0	(Carica papaya)

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

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G04240.1	1e-100	C2H2 family protein

Link Out ? help Back to Top
Phytozome	evm.model.supercontig_53.94

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]