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

Niben101Scf18328g00009.1

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: 1419aa MW: 158475 Da PI: 6.7541

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf18328g00009.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	12.4	0.00047	1327	1350	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +Cp Cgk F+++ + +H+r+H Niben101Scf18328g00009.1 1327 RCPieGCGKKFTSHKYALVHQRVH 1350 69999*****************99 PP
2	zf-C2H2	10.8	0.0015	1386	1412	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg +F+ s++ rH r+ H Niben101Scf18328g00009.1 1386 YKCKveGCGLTFRFVSDYSRHRRKtgH 1412 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	2.1E-14	19	52	IPR003349	JmjN domain
SMART	SM00558	8.6E-46	287	456	IPR003347	JmjC domain
SuperFamily	SSF51197	3.3E-28	288	453	No hit	No description
PROSITE profile	PS51184	35.139	290	456	IPR003347	JmjC domain
Pfam	PF02373	4.4E-36	320	439	IPR003347	JmjC domain
SMART	SM00355	13	1303	1325	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	2.05E-5	1326	1363	No hit	No description
PROSITE profile	PS50157	12.175	1326	1355	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.024	1326	1350	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.9E-5	1327	1354	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1328	1350	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	5.3E-9	1355	1380	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0028	1356	1380	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.531	1356	1385	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1358	1380	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.84E-10	1366	1408	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.4E-10	1381	1409	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	9.536	1386	1417	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.28	1386	1412	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1388	1412	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: 1419 aa Download sequence Send to blast
MVMKCVDIPE WLKGLPLAPE FRPTDTEFAD PIAYISKIEK EASAFGICKV IPPLPKPSKK 60 YVVHNLNKSL SKCPELGLNA NRDTSSTTSG EDEGNVDGGE FRAVFTTRHQ ELGHSEKKKI 120 KREFGFHPLG AQKQVWQSGE VYTLEQFEAK SKNFSRSQLG VVKELSPLVV EAMFWKRASE 180 DPIYVEYAND VPGSAFGDHE GLFHYFRRRR RRGKRTIPDR NSRRNSGYKN DEVGTSCSIA 240 DKSPCHSIET QSASLLTPPS KKITNSSLFR PKDSSNAGAM EGSAGWNLSN SPWNLQIIAR 300 SPGSLTRFMP DDIPGVTSPM VYIGMLFSWF AWHVEDHELH SLNFLHTGSP KTWYAVPGDY 360 AFNFEEVIRH HAYGGNTDRL AALTLLGEKT TLLSPEVVVA SGIPCCRLVQ NPGEFVVTFP 420 RAYHIGFSHG FNCGEAANFG TPQWLTVAKE AAVRRAAMNY LPMLSHQQLL YLLTMSFVSS 480 VPRSLLPGVR TSRQRDRQKE EKELLVKKAF LEDIEKENDL VKVLLQKSFS DTAVLWDVDM 540 LPSSGKESEL HKHASVDASR GKDQSDNIDS QDLLDQMNLY MDNYSDFYVD DDVSCDFEVD 600 SGTLPCIACG ILGFPFMALV QPSEKAAEHL FPEDFQNKQD SGAVKHVESD CHSDLRGMIE 660 DYNRVDRMER KGGHFLNHDE VSLSSQPSES VVTPHEDQTS QSHNTSHTDN VALTSKIELE 720 KEWDFCRSFV RPRIFCLEHA IQTEELLHAK GGANVLVICH SEEIGTTFKY NEITLANASQ 780 GHLSLIDLAI VDEEQDKCTE DWTLELNINL RHCVKVQKNC PLKKLKHALT LGGLFSDSTL 840 SSESLSLKWQ SRKVRSKRKS NNSTESPPFA NVQIEKVLDS GSIVGRQSTR KGNITVQYSR 900 KKYKSKACSC AEVTRAFVDP SNALTEEVLL TDAKTLVSTT LIRDENAGTA SSGERCFAAS 960 EGKPGHQEHE MLLVNRDQNG NLLVSQAADL LVTSSVMVEF SEAQAEICTT EKFSMEEKTC 1020 RTNSNNCHAE HKTTAPEISG ETEVAHVNTP ACTTIPAVQS TANNENLREN QDTTESGIRN 1080 KSAHPTEADF ERDHHGEADE AIMTRSPVPV NSSGSCTDGP SRSCDEQIED QSPEQSGSGD 1140 EASDYETSDN SVEQKIQIDN ADQGIAVSDH VTPVEEASAS AGSLKVTRET SSPKHSQSGH 1200 NISERHKKES NNDTSPIVSR PIAKSGSKRR RELELLTYDG CSIGGFVKSP CEGLRPRAWK 1260 NVLWSRVDTK EPLEDKSMGK KVKTSLPSSI THKDKKEQRK GTHRCDLEGC RMSFQTKVEL 1320 QLHKRNRCPI EGCGKKFTSH KYALVHQRVH ENDRPLRCPW KGCTMTFKWA WARTEHLRVH 1380 TGERPYKCKV EGCGLTFRFV SDYSRHRRKT GHYVEVANV

Sequence ? help Back to Top

Protein Sequence Length: 1419 aa Download sequence Send to blast

MVMKCVDIPE WLKGLPLAPE FRPTDTEFAD PIAYISKIEK EASAFGICKV IPPLPKPSKK  60
YVVHNLNKSL SKCPELGLNA NRDTSSTTSG EDEGNVDGGE FRAVFTTRHQ ELGHSEKKKI  120
KREFGFHPLG AQKQVWQSGE VYTLEQFEAK SKNFSRSQLG VVKELSPLVV EAMFWKRASE  180
DPIYVEYAND VPGSAFGDHE GLFHYFRRRR RRGKRTIPDR NSRRNSGYKN DEVGTSCSIA  240
DKSPCHSIET QSASLLTPPS KKITNSSLFR PKDSSNAGAM EGSAGWNLSN SPWNLQIIAR  300
SPGSLTRFMP DDIPGVTSPM VYIGMLFSWF AWHVEDHELH SLNFLHTGSP KTWYAVPGDY  360
AFNFEEVIRH HAYGGNTDRL AALTLLGEKT TLLSPEVVVA SGIPCCRLVQ NPGEFVVTFP  420
RAYHIGFSHG FNCGEAANFG TPQWLTVAKE AAVRRAAMNY LPMLSHQQLL YLLTMSFVSS  480
VPRSLLPGVR TSRQRDRQKE EKELLVKKAF LEDIEKENDL VKVLLQKSFS DTAVLWDVDM  540
LPSSGKESEL HKHASVDASR GKDQSDNIDS QDLLDQMNLY MDNYSDFYVD DDVSCDFEVD  600
SGTLPCIACG ILGFPFMALV QPSEKAAEHL FPEDFQNKQD SGAVKHVESD CHSDLRGMIE  660
DYNRVDRMER KGGHFLNHDE VSLSSQPSES VVTPHEDQTS QSHNTSHTDN VALTSKIELE  720
KEWDFCRSFV RPRIFCLEHA IQTEELLHAK GGANVLVICH SEEIGTTFKY NEITLANASQ  780
GHLSLIDLAI VDEEQDKCTE DWTLELNINL RHCVKVQKNC PLKKLKHALT LGGLFSDSTL  840
SSESLSLKWQ SRKVRSKRKS NNSTESPPFA NVQIEKVLDS GSIVGRQSTR KGNITVQYSR  900
KKYKSKACSC AEVTRAFVDP SNALTEEVLL TDAKTLVSTT LIRDENAGTA SSGERCFAAS  960
EGKPGHQEHE MLLVNRDQNG NLLVSQAADL LVTSSVMVEF SEAQAEICTT EKFSMEEKTC  1020
RTNSNNCHAE HKTTAPEISG ETEVAHVNTP ACTTIPAVQS TANNENLREN QDTTESGIRN  1080
KSAHPTEADF ERDHHGEADE AIMTRSPVPV NSSGSCTDGP SRSCDEQIED QSPEQSGSGD  1140
EASDYETSDN SVEQKIQIDN ADQGIAVSDH VTPVEEASAS AGSLKVTRET SSPKHSQSGH  1200
NISERHKKES NNDTSPIVSR PIAKSGSKRR RELELLTYDG CSIGGFVKSP CEGLRPRAWK  1260
NVLWSRVDTK EPLEDKSMGK KVKTSLPSSI THKDKKEQRK GTHRCDLEGC RMSFQTKVEL  1320
QLHKRNRCPI EGCGKKFTSH KYALVHQRVH ENDRPLRCPW KGCTMTFKWA WARTEHLRVH  1380
TGERPYKCKV EGCGLTFRFV SDYSRHRRKT GHYVEVANV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	2e-55	276	470	148	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	2e-55	276	470	148	346	Arabidopsis JMJ13
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	206	214	RRRRRRGKR

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_016462121.1	0.0	PREDICTED: lysine-specific demethylase SE14
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A1S3ZCI2	0.0	A0A1S3ZCI2_TOBAC; lysine-specific demethylase SE14
STRING	XP_009765922.1	0.0	(Nicotiana sylvestris)

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]