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

RrC21467_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: 413aa MW: 45684.7 Da PI: 8.5072

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC21467_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	17.5	1.1e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H RrC21467_p1 6 FVCEICNKGFQRDQNLQLHRRGH 28 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.82E-6	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.3E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	6	28	IPR007087	Zinc finger, C2H2
Pfam	PF12171	6.3E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	240	48	78	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.82E-6	78	103	No hit	No description
SMART	SM00355	180	83	103	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: 413 aa Download sequence Send to blast
MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRSNK EVIRKKVYVC PEESCVHHDP 60 SRALGDLTGI KKHFCRKHGE KKWKCDKCSK KYAVQSDCKA HSKTCGTKEY RCDCGTLFSR 120 RDSFITHRAF CEALAEETAR EVVIPQNQNH QPNPLMIQQS SSSSPHHHQA QPTVNISSSS 180 SSSHNIINSL HFETNHNGTN NSNTNSNHLH TFPMKIEQQQ SNDHIINYHQ HIIPPWLTSP 240 NPNPSNGGGG LFSLAPSPAM SATALLQKAA QMGSTKSPPL PPNTDSERPA HHNNNLTTKM 300 ASMMTSPSGF ISSNNSNNQV LFQDYNASEF DHHGGEEAFD DTFGGFLRTN VDTTTTSGSD 360 KNKSGGGGGE GLTRDFLGLR PLMSHNEILS FAGLGNCING SASDQLHPKP WQG

Sequence ? help Back to Top

Protein Sequence Length: 413 aa Download sequence Send to blast

MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRSNK EVIRKKVYVC PEESCVHHDP  60
SRALGDLTGI KKHFCRKHGE KKWKCDKCSK KYAVQSDCKA HSKTCGTKEY RCDCGTLFSR  120
RDSFITHRAF CEALAEETAR EVVIPQNQNH QPNPLMIQQS SSSSPHHHQA QPTVNISSSS  180
SSSHNIINSL HFETNHNGTN NSNTNSNHLH TFPMKIEQQQ SNDHIINYHQ HIIPPWLTSP  240
NPNPSNGGGG LFSLAPSPAM SATALLQKAA QMGSTKSPPL PPNTDSERPA HHNNNLTTKM  300
ASMMTSPSGF ISSNNSNNQV LFQDYNASEF DHHGGEEAFD DTFGGFLRTN VDTTTTSGSD  360
KNKSGGGGGE GLTRDFLGLR PLMSHNEILS FAGLGNCING SASDQLHPKP WQG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-32	79	147	3	71	Zinc finger protein JACKDAW
5b3h_F	2e-32	79	147	3	71	Zinc finger protein JACKDAW
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	32	45	KLKQRSNKEVIRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000305}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00355	DAP	Transfer from AT3G13810	Download

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF361797	0.0	AF361797.1 Arabidopsis thaliana AT3g13810/MCP4_2 mRNA, complete cds.
GenBank	AY091693	0.0	AY091693.1 Arabidopsis thaliana AT3g13810/MCP4_2 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018441287.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441288.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441289.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441381.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441382.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441383.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Swissprot	Q9LRW7	0.0	IDD11_ARATH; Protein indeterminate-domain 11
TrEMBL	A0A1J3FCK1	0.0	A0A1J3FCK1_NOCCA; Protein indeterminate-domain 11 (Fragment)
TrEMBL	A0A1J3JPP2	0.0	A0A1J3JPP2_NOCCA; Protein indeterminate-domain 11
STRING	Bo1g134920.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13810.3	1e-178	indeterminate(ID)-domain 11

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]