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

Achn364631

Organism

Actinidia chinensis

Taxonomic ID

3625

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia

Family

C2H2

Protein Properties

Length: 1152aa MW: 129061 Da PI: 7.6513

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Achn364631	genome	IKGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	12.3	0.00053	1039	1064	1	23
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 ++C C +sF+++ +L H r+ + Achn364631 1039 HRCDleGCRMSFKTRADLLLHKRNrC 1064 789999****************9877 PP
2	zf-C2H2	11.2	0.0012	1122	1148	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 y+C+ Cg +F+ s+++rH r+ H Achn364631 1122 YECKveGCGLTFRFISDYNRHRRKtkH 1148 89*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	2.3E-13	15	55	IPR003349	JmjN domain
PROSITE profile	PS51183	13.619	16	57	IPR003349	JmjN domain
Pfam	PF02375	2.4E-13	17	50	IPR003349	JmjN domain
SMART	SM00558	1.4E-45	283	452	IPR003347	JmjC domain
PROSITE profile	PS51184	32.872	286	452	IPR003347	JmjC domain
SuperFamily	SSF51197	4.67E-26	287	449	No hit	No description
Pfam	PF02373	4.1E-36	316	435	IPR003347	JmjC domain
SMART	SM00355	13	1039	1061	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.6E-5	1062	1099	No hit	No description
PROSITE profile	PS50157	12.009	1062	1091	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.082	1062	1086	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.9E-4	1063	1090	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1064	1086	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	8.1E-10	1091	1116	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0054	1092	1116	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.863	1092	1121	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1094	1116	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.95E-10	1102	1144	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.3E-10	1117	1144	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.059	1122	1148	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.349	1122	1151	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1124	1148	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: 1152 aa Download sequence Send to blast
MRDVEIPNWL KGLPLAPEFR PTDTEFADPI SYISKIEKEA SIFGICKVIP PLPKPSKKFV 60 VSNLNKSLLK NPELGRDLNL GGTESGNEAN DGEARAVFTT RQQELGQNAK TTKKVAHPQP 120 PTVRKLVWQS GEIYTLEQFE SKSKSFAKNQ LGSVKDVSPL AIEALFWKAA SEKPIHIEYA 180 NDVPGSGFGE PEGSFRYFHR RRRRRTFNRN TGGSYNSGKY QVNSMSSNYE NKEESAKNSP 240 NSSRETSKVS ISLPTISSNQ TSQFSRQKSS TAAKEMEGSA GWKLSNCHWN LQVIARSPGS 300 LTRFMPDDIP GVTSPMVYIG MLFSWFAWHV EDHELHSLNF LHTGSPKTWY AVPGDYAFAF 360 EEVIRNQGYG GNIDRLAALT LLGEKTTLLS PEVVVESGIP CCRLIQNPGE FVVTFPRAYH 420 VGFSHGFNCG EAANFGTSKW LNVAKEAAVR RAAMNHLPML SHQQLLYLLT MSFASRVPRS 480 LLPGARNSRL RDRQKEEREL SVKKAFIEDI LNENNLLTIL LGKNSSYHVV LWDLESLPSP 540 RQDPALCSNV APVETAPRKD VCYENKNNQD LFSEMSLYME TVNDLYADCD DLSCNFQVDS 600 GALACVACGI LGFPFMSVVQ PSEKASMDLQ DLALSNPMEF HSPAVLDHMV EGFVSDGLKD 660 KIERNDSNAL RLPNETSSSA ESANSMVLPS EDLSTSHDPS PPPKDLPVSS EAKFEKGWSA 720 SRGFLRPRIF CMEHAIQIEE MLHSKGGANV LVICHSDFQK IKAHVATVAE EIDSRFGYNE 780 ISLDDASQED LNLIDLAIDG EEHDECGEDW TSKLSINLRH CVKVRKNSAS KQVQHALALG 840 GLFSDSTPGS NTSNLKWPSR KSRSKRNINH SLHIKPSESI GLDNPVQEKP SESIQIEKVE 900 VMGAKLDDTV VRKEEESLEV PIKANAAEGM QSDSENPCLA DERELENNGF TKVRPRSPAR 960 NGKKRRRNVE LQIEDQFDYN SFIRSPCERL RPRAAKDSKQ GGIESNETFE EKPAAKKASK 1020 PSDDFPSRKG KKENQKGSHR CDLEGCRMSF KTRADLLLHK RNRCPHKGCG KEFSSHKYAV 1080 LHQRVHDDDR PLKCPWEGCA MSFKWAWART EHIRVHTGER PYECKVEGCG LTFRFISDYN 1140 RHRRKTKHYV T*

Sequence ? help Back to Top

Protein Sequence Length: 1152 aa Download sequence Send to blast

MRDVEIPNWL KGLPLAPEFR PTDTEFADPI SYISKIEKEA SIFGICKVIP PLPKPSKKFV  60
VSNLNKSLLK NPELGRDLNL GGTESGNEAN DGEARAVFTT RQQELGQNAK TTKKVAHPQP  120
PTVRKLVWQS GEIYTLEQFE SKSKSFAKNQ LGSVKDVSPL AIEALFWKAA SEKPIHIEYA  180
NDVPGSGFGE PEGSFRYFHR RRRRRTFNRN TGGSYNSGKY QVNSMSSNYE NKEESAKNSP  240
NSSRETSKVS ISLPTISSNQ TSQFSRQKSS TAAKEMEGSA GWKLSNCHWN LQVIARSPGS  300
LTRFMPDDIP GVTSPMVYIG MLFSWFAWHV EDHELHSLNF LHTGSPKTWY AVPGDYAFAF  360
EEVIRNQGYG GNIDRLAALT LLGEKTTLLS PEVVVESGIP CCRLIQNPGE FVVTFPRAYH  420
VGFSHGFNCG EAANFGTSKW LNVAKEAAVR RAAMNHLPML SHQQLLYLLT MSFASRVPRS  480
LLPGARNSRL RDRQKEEREL SVKKAFIEDI LNENNLLTIL LGKNSSYHVV LWDLESLPSP  540
RQDPALCSNV APVETAPRKD VCYENKNNQD LFSEMSLYME TVNDLYADCD DLSCNFQVDS  600
GALACVACGI LGFPFMSVVQ PSEKASMDLQ DLALSNPMEF HSPAVLDHMV EGFVSDGLKD  660
KIERNDSNAL RLPNETSSSA ESANSMVLPS EDLSTSHDPS PPPKDLPVSS EAKFEKGWSA  720
SRGFLRPRIF CMEHAIQIEE MLHSKGGANV LVICHSDFQK IKAHVATVAE EIDSRFGYNE  780
ISLDDASQED LNLIDLAIDG EEHDECGEDW TSKLSINLRH CVKVRKNSAS KQVQHALALG  840
GLFSDSTPGS NTSNLKWPSR KSRSKRNINH SLHIKPSESI GLDNPVQEKP SESIQIEKVE  900
VMGAKLDDTV VRKEEESLEV PIKANAAEGM QSDSENPCLA DERELENNGF TKVRPRSPAR  960
NGKKRRRNVE LQIEDQFDYN SFIRSPCERL RPRAAKDSKQ GGIESNETFE EKPAAKKASK  1020
PSDDFPSRKG KKENQKGSHR CDLEGCRMSF KTRADLLLHK RNRCPHKGCG KEFSSHKYAV  1080
LHQRVHDDDR PLKCPWEGCA MSFKWAWART EHIRVHTGER PYECKVEGCG LTFRFISDYN  1140
RHRRKTKHYV T*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	4e-55	273	466	144	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	4e-55	273	466	144	346	Arabidopsis JMJ13
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	195	204	RYFHRRRRRR
2	200	205	RRRRRT

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AM479252	9e-99	AM479252.2 Vitis vinifera contig VV78X066822.6, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028071343.1	0.0	probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A2R6RTT0	0.0	A0A2R6RTT0_ACTCH; Lysine-specific demethylase (Fragment)
STRING	POPTR_0010s23160.1	0.0	(Populus trichocarpa)

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]