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

GSBRNA2T00148816001

Common Name

GSBRNA2T00148816001, LOC106347326, LOC106351603, LOC106419722

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: 182aa MW: 20385.2 Da PI: 9.5821

Description

ZF-HD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00148816001	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	95.9	3.2e-30	3	58	4	58
ZF-HD_dimer 4 vrYkeClkNhAaslGghavDGCgEfmpsegee.gtaaalkCaACgCHRnFHRreve 58 + Y+eClkN+A+s Gg+a+DGCgEfmp++++ +++ +l C ACgCHRnFHRr+++ GSBRNA2T00148816001 3 FLYNECLKNQAVSFGGYALDGCGEFMPKSTTIlTDPPSLSCDACGCHRNFHRRDPS 58 68************************99999******************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD125774	3.0E-25	1	61	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
Pfam	PF04770	6.3E-25	4	56	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
TIGRFAMs	TIGR01566	8.7E-30	5	56	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE profile	PS51523	23.816	5	56	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
Gene3D	G3DSA:1.10.10.60	2.5E-24	96	164	IPR009057	Homeodomain-like
SuperFamily	SSF46689	4.11E-16	97	164	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01565	6.1E-27	107	164	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: 182 aa Download sequence Send to blast
MGFLYNECLK NQAVSFGGYA LDGCGEFMPK STTILTDPPS LSCDACGCHR NFHRRDPSSV 60 FIHRTNSPPP PPPLQPATST HLLLSLSGSG FSGPSDQDMG KISTVDRKRK RTKFTVKQKV 120 MMRAFAERAG WKINGCDDEY VREFCREVGV EREVLKVWIH NNKYFANGRN RNTTSSMFQK 180 L*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wh5_A	2e-19	107	164	17	74	ZF-HD homeobox family protein
Search in ModeBase

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00148816001

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	AB011483	3e-51	AB011483.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MUF9.
GenBank	CP002688	3e-51	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013642302.1	1e-136	zinc-finger homeodomain protein 12-like
Refseq	XP_013646836.1	1e-136	zinc-finger homeodomain protein 12-like
Refseq	XP_013715993.1	1e-136	zinc-finger homeodomain protein 12-like
Swissprot	Q9FKJ9	3e-85	ZHD12_ARATH; Zinc-finger homeodomain protein 12
TrEMBL	A0A397ZUP0	1e-125	A0A397ZUP0_BRACM; Uncharacterized protein
TrEMBL	M4CR16	1e-125	M4CR16_BRARP; Uncharacterized protein
STRING	Bra006657.1-P	1e-125	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5166	25	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60480.1	3e-79	homeobox protein 26

Link Out ? help Back to Top
Entrez Gene	106347326 \| 106351603 \| 106419722

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]