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

Niben101Scf00751g06003.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

C2H2

Protein Properties

Length: 1443aa MW: 160955 Da PI: 6.8653

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf00751g06003.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	12.5	0.00046	1352	1375	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +Cp Cgk F+++ + +H+r+H Niben101Scf00751g06003.1 1352 RCPieGCGKKFTSHKYALVHQRVH 1375 69999*****************99 PP
2	zf-C2H2	11.2	0.0011	1411	1437	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg sF+ s++ rH r+ H Niben101Scf00751g06003.1 1411 YKCKveGCGLSFRFVSDYSRHRRKtgH 1437 99*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	1.5E-14	17	57	IPR003349	JmjN domain
PROSITE profile	PS51183	13.73	18	59	IPR003349	JmjN domain
Pfam	PF02375	2.2E-14	19	52	IPR003349	JmjN domain
SMART	SM00558	1.7E-45	287	456	IPR003347	JmjC domain
SuperFamily	SSF51197	9.61E-27	288	453	No hit	No description
PROSITE profile	PS51184	33.894	290	456	IPR003347	JmjC domain
Pfam	PF02373	2.4E-36	320	439	IPR003347	JmjC domain
SMART	SM00355	100	1328	1350	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	2.05E-5	1351	1388	No hit	No description
PROSITE profile	PS50157	12.175	1351	1380	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.024	1351	1375	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.9E-5	1352	1379	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1353	1375	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	5.4E-9	1380	1405	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0028	1381	1405	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.531	1381	1410	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1383	1405	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.63E-10	1391	1433	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.0E-11	1406	1434	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	9.785	1411	1442	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.33	1411	1437	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1413	1437	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: 1443 aa Download sequence Send to blast
MVMKCVDIPE WLKGLPLAPE FRPTDTEFAD PIAYISKIEK EASAFGICKV IPPLPKPSKK 60 YVVHNLNKSL SKCPELGLNA NRDTSSTTSG EDEGNVDGGE FRAVFTTRHQ ELGRSEKRKI 120 KRELGFHPLG AQKQVWQSGE VYTLEEFEAK SKNFARSQLG LVKEISPLVV EAMFWKRASE 180 DPIYVEYAND VPGSAFGEPE GLFHYFHRRR RRRKRTIPDR NSRRNSGYKN DEVGTSSSGA 240 DKSPCHCLEI RSASLLTPPS KKITNSSLFR PKDCSNAGAM EGTAGWNLSN SPWNLQVIAR 300 SPGSLTRFMP DDIPGVSSPM VYIGMLFSWF AWHVEDHELH SLNFLHTGSP KTWYAVPGDY 360 AFSFEEVIRH HAYGGNTDRL AALTLLGEKT TLLSPEVVVA SGIPCCRLVQ NPGEFVVTFP 420 RAYHIGFSHG FNCGEAANFG TPQWLTVAKE AAVRRAAMNY LPMLSHQQLL YLLTMSFVSS 480 VPRSLLPGVR TSRLRDRQKE EKELLVKKAF LEDIEKENDL VKVLLQKSFS DTAVLWDVDM 540 LPSSGKESEL HKHASVDASR GNDLSDNINS QDLLDQMSLY MDNYSDFYVD DDVSCDFEID 600 SGSLPCIACG ILGFPFMALV QPSKKAAEHF FPEDFQNKQD SGAVKHVESD CHSDLRGMIE 660 DYNRVDRMER SGGHFRNHDE VSLSSQPSES AVTPHEGQTS QSHNPSHTDK SALTSKIELE 720 KEWDFCTSFV RPRIFCLEHA IQTEELLHTK GGANVLVICH SDFQKIRSHA TIVAEEIGTA 780 FKYNQISLAN ASQGHLSLID LAIVDEEQDK CTEDWTLKLN INLRHCVKVQ KNCPLKKLKH 840 ALTLGGLFSD STLSSESSSL KWQSRKVRSK RKSNNSTESP PFANVQIAKV LDSGSIVGRQ 900 NARKGSITIQ YSRKKYKSEA CSCAEVTRAF VDPFNALMEE VLLTDAKALG SSTLIRDENA 960 GTASSGERFF AASEGKPGLH HEHEMLLENR DENGNLLVSR EADLLVTSSI MVEFNEAQAE 1020 ICTTEKFSME EKTCHTNSNN RHAEHKTTAP DISGETETTA PDISGETEVA HVNTLACTTI 1080 PVVRSTANNE NLRENQDMTE SGIRNKSAHP TVADFERDHH GEADKAIMSR SPVPVNSSGS 1140 CTDDPSRSCD EQIEDQSPEQ SGSVSEASDN ETSDNSMEQK IQIDNADQGI AVSDHVTPVE 1200 ESSASAESLK VTRETSSPKH SESGDNISER HKKESKDDTS PIVSRPIAKS GGKRRRELEL 1260 LTYDGCSIGG FVKSPCEGLR PRARKNVLGR GVDSKEPLED KPMGKKVKTS VPSSITHKDK 1320 KEQRKGTHWC DLEGCRMSFQ TKVELQVHKR NRCPIEGCGK KFTSHKYALV HQRVHENDRP 1380 LRCPWKGCTM TFKWAWARTE HLRVHTGERP YKCKVEGCGL SFRFVSDYSR HRRKTGHYVE 1440 AAN

Sequence ? help Back to Top

Protein Sequence Length: 1443 aa Download sequence Send to blast

MVMKCVDIPE WLKGLPLAPE FRPTDTEFAD PIAYISKIEK EASAFGICKV IPPLPKPSKK  60
YVVHNLNKSL SKCPELGLNA NRDTSSTTSG EDEGNVDGGE FRAVFTTRHQ ELGRSEKRKI  120
KRELGFHPLG AQKQVWQSGE VYTLEEFEAK SKNFARSQLG LVKEISPLVV EAMFWKRASE  180
DPIYVEYAND VPGSAFGEPE GLFHYFHRRR RRRKRTIPDR NSRRNSGYKN DEVGTSSSGA  240
DKSPCHCLEI RSASLLTPPS KKITNSSLFR PKDCSNAGAM EGTAGWNLSN SPWNLQVIAR  300
SPGSLTRFMP DDIPGVSSPM VYIGMLFSWF AWHVEDHELH SLNFLHTGSP KTWYAVPGDY  360
AFSFEEVIRH HAYGGNTDRL AALTLLGEKT TLLSPEVVVA SGIPCCRLVQ NPGEFVVTFP  420
RAYHIGFSHG FNCGEAANFG TPQWLTVAKE AAVRRAAMNY LPMLSHQQLL YLLTMSFVSS  480
VPRSLLPGVR TSRLRDRQKE EKELLVKKAF LEDIEKENDL VKVLLQKSFS DTAVLWDVDM  540
LPSSGKESEL HKHASVDASR GNDLSDNINS QDLLDQMSLY MDNYSDFYVD DDVSCDFEID  600
SGSLPCIACG ILGFPFMALV QPSKKAAEHF FPEDFQNKQD SGAVKHVESD CHSDLRGMIE  660
DYNRVDRMER SGGHFRNHDE VSLSSQPSES AVTPHEGQTS QSHNPSHTDK SALTSKIELE  720
KEWDFCTSFV RPRIFCLEHA IQTEELLHTK GGANVLVICH SDFQKIRSHA TIVAEEIGTA  780
FKYNQISLAN ASQGHLSLID LAIVDEEQDK CTEDWTLKLN INLRHCVKVQ KNCPLKKLKH  840
ALTLGGLFSD STLSSESSSL KWQSRKVRSK RKSNNSTESP PFANVQIAKV LDSGSIVGRQ  900
NARKGSITIQ YSRKKYKSEA CSCAEVTRAF VDPFNALMEE VLLTDAKALG SSTLIRDENA  960
GTASSGERFF AASEGKPGLH HEHEMLLENR DENGNLLVSR EADLLVTSSI MVEFNEAQAE  1020
ICTTEKFSME EKTCHTNSNN RHAEHKTTAP DISGETETTA PDISGETEVA HVNTLACTTI  1080
PVVRSTANNE NLRENQDMTE SGIRNKSAHP TVADFERDHH GEADKAIMSR SPVPVNSSGS  1140
CTDDPSRSCD EQIEDQSPEQ SGSVSEASDN ETSDNSMEQK IQIDNADQGI AVSDHVTPVE  1200
ESSASAESLK VTRETSSPKH SESGDNISER HKKESKDDTS PIVSRPIAKS GGKRRRELEL  1260
LTYDGCSIGG FVKSPCEGLR PRARKNVLGR GVDSKEPLED KPMGKKVKTS VPSSITHKDK  1320
KEQRKGTHWC DLEGCRMSFQ TKVELQVHKR NRCPIEGCGK KFTSHKYALV HQRVHENDRP  1380
LRCPWKGCTM TFKWAWARTE HLRVHTGERP YKCKVEGCGL SFRFVSDYSR HRRKTGHYVE  1440
AAN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	8e-55	276	470	148	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	8e-55	276	470	148	346	Arabidopsis JMJ13
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	207	214	RRRRRRKR
2	208	214	RRRRRKR

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019247231.1	0.0	PREDICTED: probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A1S3ZCI2	0.0	A0A1S3ZCI2_TOBAC; lysine-specific demethylase SE14
STRING	XP_009589507.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA4835	17	21

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]