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

Carubv10026480m

Common Name

CARUB_v10026480mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 420aa MW: 46735.8 Da PI: 9.9076

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10026480m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15	7.3e-05	73	95	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Carubv10026480m 73 FFCEICSKGFQREQNLQLHKRGH 95 67******************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	4.9E-5	72	95	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.43E-7	72	95	No hit	No description
SMART	SM00355	0.019	73	95	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	1.7E-5	73	95	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.741	73	95	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	75	95	IPR007087	Zinc finger, C2H2
SMART	SM00355	120	115	145	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.2E-4	138	171	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.43E-7	145	170	No hit	No description
SMART	SM00355	180	150	170	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: 420 aa Download sequence Send to blast
MNNQDMMIPH NDDRLSFSSF VHPQEHITPN SNPNSKHAST NTPKKKRNLP GNPDPDAEVI 60 ALSPKSLMAT NRFFCEICSK GFQREQNLQL HKRGHNLPWK LKQRTNKNQV KKKVYICPEK 120 SCVHHDPTRA LGDLTGIKKH FSRKHGEKKW KCDKCSKKYA VVSDWKAHTK ICGSREFRCD 180 CGTLFSRKDS FISHRSFCDV LAEESAKFFS VPSPLAANST ISTVADTNNP VLIQSLTCTA 240 DLNVNNNHST LLGKKFINSE PIPQRANAFA FSPPPTPRGT SDNSVHNLWK LQEEECSHQS 300 LLNGYMNNNK NISHKGISQN QENAIIKKGN IYSGSNSSDA NIASLFSYNQ EAGNLASLSA 360 TTLLQKVAEM GSSSRSDTGT LLGLMTSSIF NNRMPNSDCL KAKNKKEEWT RDFLGVGKP*

Sequence ? help Back to Top

Protein Sequence Length: 420 aa Download sequence Send to blast

MNNQDMMIPH NDDRLSFSSF VHPQEHITPN SNPNSKHAST NTPKKKRNLP GNPDPDAEVI  60
ALSPKSLMAT NRFFCEICSK GFQREQNLQL HKRGHNLPWK LKQRTNKNQV KKKVYICPEK  120
SCVHHDPTRA LGDLTGIKKH FSRKHGEKKW KCDKCSKKYA VVSDWKAHTK ICGSREFRCD  180
CGTLFSRKDS FISHRSFCDV LAEESAKFFS VPSPLAANST ISTVADTNNP VLIQSLTCTA  240
DLNVNNNHST LLGKKFINSE PIPQRANAFA FSPPPTPRGT SDNSVHNLWK LQEEECSHQS  300
LLNGYMNNNK NISHKGISQN QENAIIKKGN IYSGSNSSDA NIASLFSYNQ EAGNLASLSA  360
TTLLQKVAEM GSSSRSDTGT LLGLMTSSIF NNRMPNSDCL KAKNKKEEWT RDFLGVGKP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-31	146	211	3	68	Zinc finger protein JACKDAW
5b3h_F	2e-31	146	211	3	68	Zinc finger protein JACKDAW
Search in ModeBase

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10026480m

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	BT026428	0.0	BT026428.1 Arabidopsis thaliana At5g60470 mRNA, complete cds.
GenBank	DQ056731	0.0	DQ056731.1 Arabidopsis thaliana zinc finger (C2H2 type) family protein (At5g60470) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006280537.1	0.0	protein indeterminate-domain 13
Swissprot	F4JYZ8	0.0	IDD13_ARATH; Protein indeterminate-domain 13
TrEMBL	R0GM86	0.0	R0GM86_9BRAS; Uncharacterized protein
STRING	XP_006280537.1	0.0	(Capsella rubella)

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
AT5G60470.1	0.0	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Carubv10026480m
Entrez Gene	17876200

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]