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

Carubv10007856m

Common Name

CARUB_v10007856mg

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

ZF-HD

Protein Properties

Length: 225aa MW: 24383.2 Da PI: 7.8118

Description

ZF-HD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10007856m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	ZF-HD_dimer	106.9	1.2e-33	46	100	3	58
ZF-HD_dimer 3 kvrYkeClkNhAaslGghavDGCgEfmpsegeegtaaalkCaACgCHRnFHRreve 58 k+rY+eClkNhA+++GghavDGC+Efmps ge+gt +alkCaACgCHRnFHR+e+e Carubv10007856m 46 KMRYRECLKNHAVNIGGHAVDGCCEFMPS-GEDGTLDALKCAACGCHRNFHRKETE 100 789***********************9.999******************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04770	1.4E-30	47	99	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
ProDom	PD125774	3.0E-26	47	100	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
TIGRFAMs	TIGR01566	2.5E-29	48	98	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE profile	PS51523	27.366	49	98	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
Gene3D	G3DSA:1.10.10.60	2.9E-32	148	223	IPR009057	Homeodomain-like
SuperFamily	SSF46689	6.92E-20	149	222	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01565	2.0E-27	162	218	IPR006455	Homeodomain, ZF-HD class

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009793	Biological Process	embryo development ending in seed dormancy
GO:0003677	Molecular Function	DNA binding
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 225 aa Download sequence Send to blast
MDFEEQEEDM EMSGVNPPGG YDSLSGEGAT SSGGGGGGRN KGVGGKMRYR ECLKNHAVNI 60 GGHAVDGCCE FMPSGEDGTL DALKCAACGC HRNFHRKETE IVGGRGQRVP TYYNRPPQPH 120 PPPGYLHLTS PTAAGQPYRP PMASADEEDT SNPSSSGGNT AKRFRTKFTA EQKEKMLAFA 180 ERLGWRIQKH DDVAVEQFCA ETGVRRQVLK IWMHNNKNSL GKKP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wh7_A	1e-37	160	219	16	75	ZF-HD homeobox family protein
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Essential protein. Putative transcription factor.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10007856m

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	AF439841	0.0	AF439841.1 Arabidopsis thaliana AT4g24660/F22K18_140 mRNA, complete cds.
GenBank	AL035356	0.0	AL035356.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F22K18 (ESSAII project).
GenBank	AL161561	0.0	AL161561.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 61.
GenBank	AY125563	0.0	AY125563.1 Arabidopsis thaliana AT4g24660/F22K18_140 mRNA, complete cds.
GenBank	CP002687	0.0	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006286279.1	1e-168	zinc-finger homeodomain protein 2
Swissprot	Q9SB61	1e-127	ZHD2_ARATH; Zinc-finger homeodomain protein 2
TrEMBL	R0FAW7	1e-167	R0FAW7_9BRAS; Uncharacterized protein
STRING	XP_006286279.1	1e-168	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4505	24	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G24660.1	1e-101	homeobox protein 22

Link Out ? help Back to Top
Phytozome	Carubv10007856m
Entrez Gene	17879897

Publications ? help Back to Top
Bueso E,Serrano R,Pallás V,Sánchez-Navarro JA Seed tolerance to deterioration in arabidopsis is affected by virus infection. Plant Physiol. Biochem., 2017. 116: p. 1-8 [PMID:28477474]