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

29646.m001073

Common Name

RCOM_0553400

Organism

Ricinus communis

Taxonomic ID

3988

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus

Family

C2H2

Protein Properties

Length: 520aa MW: 53994.7 Da PI: 8.6569

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
29646.m001073	genome	JCVI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.5e-05	61	83	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H 29646.m001073 61 FVCEICNKGFQRDQNLQLHRRGH 83 89*******************88 PP
2	zf-C2H2	11.3	0.0011	137	159	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H + + 29646.m001073 137 WKCDKCSKKYAVQSDWKAHSKIC 159 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.7E-5	60	83	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.38E-7	60	83	No hit	No description
Pfam	PF12171	8.3E-5	61	83	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	61	83	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	61	83	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	63	83	IPR007087	Zinc finger, C2H2
SMART	SM00355	190	102	132	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	6.8E-4	125	158	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.38E-7	132	157	No hit	No description
SMART	SM00355	150	137	157	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009937	Biological Process	regulation of gibberellic acid mediated signaling pathway
GO:0010029	Biological Process	regulation of seed germination
GO:0010431	Biological Process	seed maturation
GO:0005634	Cellular Component	nucleus
GO:0044212	Molecular Function	transcription regulatory region DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 520 aa Download sequence Send to blast
MSVDLDNSST ASGEASVFSS GNQPQPPKST AKKKRNLPGM PDPDAEVIAL SPKTLLATNR 60 FVCEICNKGF QRDQNLQLHR RGHNLPWKLR QRSSKEVKKR VYVCPEPTCV HHDPSRALGD 120 LTGIKKHFCR KHGEKKWKCD KCSKKYAVQS DWKAHSKICG TRERDSFITH RAFCDALAEE 180 SARGQPPASN PNPNPNPAAA TSNSETELKV DPTPPQQPPP PPPPAAVVVA PATVSAPPVL 240 SQSAAVISSS VSPIHSPELP GNPTPIVEEA PAQAPAPAPL PACLNGSCSS STSSSSNGST 300 SNGVFASLFA SSTASGSLQP PQTPAFTDLI RAMSRPERPT DLPPSCNEPI SLCLSTTHGS 360 SIFGTGGQER SQYAPPRQPA MSATALLQKA AQMGPAATNA SLLRGLGIVS SSSSSSQQDN 420 MQWGHRRVEP ENSSVTAGLG LGLPCDGGSG LKELMMATPS VFGPKQTTLD FLGLGMAAGG 480 GSSGGLSALI TSIGSGLDVA AAAASFGGGE FSGKDMGRSS

Sequence ? help Back to Top

Protein Sequence Length: 520 aa Download sequence Send to blast

MSVDLDNSST ASGEASVFSS GNQPQPPKST AKKKRNLPGM PDPDAEVIAL SPKTLLATNR  60
FVCEICNKGF QRDQNLQLHR RGHNLPWKLR QRSSKEVKKR VYVCPEPTCV HHDPSRALGD  120
LTGIKKHFCR KHGEKKWKCD KCSKKYAVQS DWKAHSKICG TRERDSFITH RAFCDALAEE  180
SARGQPPASN PNPNPNPAAA TSNSETELKV DPTPPQQPPP PPPPAAVVVA PATVSAPPVL  240
SQSAAVISSS VSPIHSPELP GNPTPIVEEA PAQAPAPAPL PACLNGSCSS STSSSSNGST  300
SNGVFASLFA SSTASGSLQP PQTPAFTDLI RAMSRPERPT DLPPSCNEPI SLCLSTTHGS  360
SIFGTGGQER SQYAPPRQPA MSATALLQKA AQMGPAATNA SLLRGLGIVS SSSSSSQQDN  420
MQWGHRRVEP ENSSVTAGLG LGLPCDGGSG LKELMMATPS VFGPKQTTLD FLGLGMAAGG  480
GSSGGLSALI TSIGSGLDVA AAAASFGGGE FSGKDMGRSS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-23	133	190	3	71	Zinc finger protein JACKDAW
5b3h_F	5e-23	133	190	3	71	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269\|PubMed:21571950, ECO:0000269\|PubMed:25035403}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00592	DAP	Transfer from AT5G66730	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	29646.m001073

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015578437.1	0.0	protein indeterminate-domain 2
Swissprot	Q9LVQ7	1e-176	IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBL	B9SGJ2	0.0	B9SGJ2_RICCO; Nucleic acid binding protein, putative
STRING	XP_002525111.1	0.0	(Ricinus communis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2218	32	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66730.1	1e-105	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	29646.m001073

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]