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

GSBRNA2T00027325001

Common Name

GSBRNA2T00027325001, LOC106361313

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

ZF-HD

Protein Properties

Length: 211aa MW: 23146.9 Da PI: 7.769

Description

ZF-HD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00027325001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	ZF-HD_dimer	96.5	2.2e-30	46	100	3	58
ZF-HD_dimer 3 kvrYkeClkNhAaslGghavDGCgEfmpsegeegtaaalkCaACgCHRnFHRreve 58 k+rY+eClkNhA+++ ghavDGC+Efmps ge+g+ +alkCaAC CHRnFHR+e+e GSBRNA2T00027325001 46 KTRYRECLKNHAVNIAGHAVDGCCEFMPS-GEDGSLDALKCAACCCHRNFHRKETE 100 789***********************9.999******************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD125774	1.0E-23	47	100	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
Pfam	PF04770	9.1E-27	47	99	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
TIGRFAMs	TIGR01566	1.8E-26	48	98	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE profile	PS51523	25.696	49	98	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
Gene3D	G3DSA:1.10.10.60	6.5E-32	133	209	IPR009057	Homeodomain-like
SuperFamily	SSF46689	1.3E-20	135	208	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01565	2.6E-26	148	204	IPR006455	Homeodomain, ZF-HD class

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 211 aa Download sequence Send to blast
MNFEEQEEEM EMSGVHPSGG YDSLSGEGAT SSGGGGGGRR TSVGEKTRYR ECLKNHAVNI 60 AGHAVDGCCE FMPSGEDGSL DALKCAACCC HRNFHRKETE MISGRAHIVP TYFNRPPQLP 120 PPGYRQPAAS ADEEDTSNPS SSGGTKAKRF RTKFTAEQKE KMFAFAERLG WRMQKHDDVA 180 VEQFCGETGI RRQVIKIWMH NNKNSLGKKP *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wh7_A	2e-34	147	205	17	75	ZF-HD homeobox family protein
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.15526	0.0	seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Mostly expressed in flowers and, to a lower extent, in inflorescence, stems and leaves. {ECO:0000269\|PubMed:16428600}.

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00027325001

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	AC189407	0.0	AC189407.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB059G16, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013656495.1	1e-158	zinc-finger homeodomain protein 2
Swissprot	Q9SB61	1e-111	ZHD2_ARATH; Zinc-finger homeodomain protein 2
TrEMBL	A0A078GHR4	1e-156	A0A078GHR4_BRANA; BnaA08g14660D protein
STRING	Bra010485.1-P	1e-156	(Brassica rapa)

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-100	homeobox protein 22

Link Out ? help Back to Top
Entrez Gene	106361313

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]