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

RrC6846_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

C2H2

Protein Properties

Length: 383aa MW: 42157.7 Da PI: 8.6174

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC6846_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.8	8.4e-05	8	28	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ C+k F r nL+ H r H RrC6846_p1 8 CEVCNKGFQREQNLQLHRRGH 28 *******************88 PP
2	zf-C2H2	11.8	0.00076	83	104	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C++C+k++ +s+ k H + + RrC6846_p1 83 NCEKCSKRYAVQSDWKAHSKIC 104 6*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	6.11E-7	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.8E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.97	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.025	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	58	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	7.0E-5	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.11E-7	77	102	No hit	No description
SMART	SM00355	220	82	102	IPR015880	Zinc finger, C2H2-like

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: 383 aa Download sequence Send to blast
MATNRFLCEV CNKGFQREQN LQLHRRGHNL PWKLKQKSNK EVRRKVYICP EPTCVHHDPS 60 RALGDLTGIK KHYYRKHGEK KWNCEKCSKR YAVQSDWKAH SKICGTKEYR CDCDSYITHR 120 AFCDALIQES KRSPTVSFTA MAAANGGGGR HGFSGGASSA LSHNHFGNNS NTGFTPLAAG 180 YSLNRSSFQK FEDFVPQPTN PYPGPNNFLL QCSSNQGLLP HNDQSLTNQH GMISLGDNII 240 NNNNNNLFNF GNFQHNIKHS DHISVPSLLA DGADNNDPSA LLRGLTSSSS SSAVVNDFGD 300 NENGNLHGLM NSLATTTDQQ GRSGSSIFDL HFGNSLSMGG SDRLTLDFLG VNGGAMSNVN 360 SRNSAPLDTE MKFSQPNNPF ERA

Sequence ? help Back to Top

Protein Sequence Length: 383 aa Download sequence Send to blast

MATNRFLCEV CNKGFQREQN LQLHRRGHNL PWKLKQKSNK EVRRKVYICP EPTCVHHDPS  60
RALGDLTGIK KHYYRKHGEK KWNCEKCSKR YAVQSDWKAH SKICGTKEYR CDCDSYITHR  120
AFCDALIQES KRSPTVSFTA MAAANGGGGR HGFSGGASSA LSHNHFGNNS NTGFTPLAAG  180
YSLNRSSFQK FEDFVPQPTN PYPGPNNFLL QCSSNQGLLP HNDQSLTNQH GMISLGDNII  240
NNNNNNLFNF GNFQHNIKHS DHISVPSLLA DGADNNDPSA LLRGLTSSSS SSAVVNDFGD  300
NENGNLHGLM NSLATTTDQQ GRSGSSIFDL HFGNSLSMGG SDRLTLDFLG VNGGAMSNVN  360
SRNSAPLDTE MKFSQPNNPF ERA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-25	78	137	3	69	Zinc finger protein JACKDAW
5b3h_F	1e-25	78	137	3	69	Zinc finger protein JACKDAW
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000305}.

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_018462460.1	0.0	PREDICTED: protein indeterminate-domain 6, chloroplastic-like
Swissprot	Q8RWX7	0.0	IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
TrEMBL	M4EDF9	0.0	M4EDF9_BRARP; Uncharacterized protein
STRING	Bra026819.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3678	17	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14580.2	0.0	C2H2-like zinc finger protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Bustillo-Avendaño E, et al. Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis. Plant Physiol., 2018. 176(2): p. 1709-1727 [PMID:29233938]