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

GSBRNA2T00009837001

Common Name

GSBRNA2T00009837001

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: 282aa MW: 30316.5 Da PI: 7.8917

Description

ZF-HD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00009837001	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	111.3	5.1e-35	39	96	3	59
ZF-HD_dimer 3 kvrYkeClkNhAaslGghavDGCgEfmpsegee.gtaaalkCaACgCHRnFHRrevee 59 +v+YkeClkNhAa++Ggha+DGCgEfmps++++ +++++lkCaACgCHRnFHRr++e+ GSBRNA2T00009837001 39 AVTYKECLKNHAAAIGGHALDGCGEFMPSPSSTpSDPTSLKCAACGCHRNFHRRDPED 96 689***************************99******************9886 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD125774	2.0E-17	40	96	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
Pfam	PF04770	5.8E-29	40	94	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
TIGRFAMs	TIGR01566	2.4E-31	41	93	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE profile	PS51523	27.717	42	93	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
SuperFamily	SSF46689	3.19E-17	145	216	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	5.8E-28	149	217	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01565	7.3E-25	157	214	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: 282 aa Download sequence Send to blast
MDMTLKSPEP EPETPTRIQP AKPISFSNGI TKRHHHPIAV TYKECLKNHA AAIGGHALDG 60 CGEFMPSPSS TPSDPTSLKC AACGCHRNFH RRDPEDSSLT SAVPPPPTSS SPPPISSSYM 120 LLALSGTNKP GGNSLPYSDL NFAANNLSTH HLTPGSRKRF RTKFSQAQKE KMHEFADRIG 180 WKFQKRDEDD VRDFCREVGV DKGVLKVWMH NNKNTFNNRR DQPVAGGTTV HCVDNDVAVN 240 NAKDDGVHGG NGLEHNLHGD GADGVNASGS SSSSGKSNNE A*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wh7_A	3e-20	156	215	16	75	ZF-HD homeobox family protein
Search in ModeBase

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

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00009837001

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	AC155348	0.0	AC155348.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' chromosome Cytogenetic chromosome 1 clone KBrH097M21, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009111615.1	1e-169	PREDICTED: zinc-finger homeodomain protein 9-like
Swissprot	Q9LHF0	1e-105	ZHD9_ARATH; Zinc-finger homeodomain protein 9
TrEMBL	A0A078G5Q4	0.0	A0A078G5Q4_BRANA; BnaA09g02430D protein
STRING	Bra039038.1-P	1e-168	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2220	25	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G28920.1	7e-94	homeobox protein 34

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] Li B, et al. Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis. Plant Cell, 2018. 30(1): p. 178-195 [PMID:29317470]