PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Previous version: v3.0 v4.0

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00153944001

Common Name

GSBRNA2T00153944001, LOC106451956

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

HB-other

Protein Properties

Length: 323aa MW: 36032.8 Da PI: 8.7862

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00153944001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	15.8	2.4e-05	33	74	24	55
S--HHHHHHHHHHC..........TS-HHHHHHHHHHHHHHH CS Homeobox 24 ypsaeereeLAkkl..........gLterqVkvWFqNrRake 55 ps++ e+LA+k ++ +q+ +WFqNrR+ GSBRNA2T00153944001 33 MPSRHILEDLADKFsesverkgkiVVQFKQIWNWFQNRRYAL 74 57777778888887777777777778889**********965 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00389	0.0016	7	81	IPR001356	Homeobox domain
SuperFamily	SSF46689	4.06E-9	12	78	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	2.3E-5	13	79	IPR009057	Homeodomain-like
CDD	cd00086	0.00153	13	75	No hit	No description
Pfam	PF16719	9.2E-40	119	246	IPR032001	SAWADEE domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0003682	Molecular Function	chromatin binding

Sequence ? help Back to Top
Protein Sequence Length: 323 aa Download sequence Send to blast
MGRPPSNGSP AFRFNMAEVM EMEGILLQHN VAMPSRHILE DLADKFSESV ERKGKIVVQF 60 KQIWNWFQNR RYALRARGNK APGKLNVSSS MQPGVDSTNQ MRNVLSVPGV MRSDSYKSYL 120 EFEAKSARDG AWYDVHNFLA HRNLETGDPE VQVRFAGFEV GEDEWIKVKK HIRLRSHPCE 180 ASECVAVLAG DLVLCFQEGK DQALYFDAKV LDAQRRRHDI RGCRCRFLVR YSHDQSEEIV 240 PLRKICRRPE TDYRLQQLHS SANDFANSNH LQKPAPDAAA APQSSASVPI VVPEKKDPSL 300 ISASATSVQP GSNAATVPAG SA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4iuq_A	3e-45	120	250	4	134	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_B	3e-45	120	250	4	134	SAWADEE HOMEODOMAIN HOMOLOG 1
4iur_A	3e-45	120	250	4	134	SHH1 SAWADEE
4iur_B	3e-45	120	250	4	134	SHH1 SAWADEE
4iut_A	3e-45	120	250	4	134	SAWADEE HOMEODOMAIN HOMOLOG 1
4iut_B	3e-45	120	250	4	134	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_A	3e-45	120	250	4	134	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_B	3e-45	120	250	4	134	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_A	3e-45	120	250	4	134	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_B	3e-45	120	250	4	134	SAWADEE HOMEODOMAIN HOMOLOG 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.28019	0.0	seed

Functional Description ? help Back to Top
Source	Description
UniProt	May play a role in the recruitment of Pol IV to genomic regions associated with K9 methylated histone H3 that are targets for RdDM.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00153944001

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	AY093042	1e-174	AY093042.1 Arabidopsis thaliana unknown protein (At3g18380) mRNA, complete cds.
GenBank	BT003428	1e-174	BT003428.1 Arabidopsis thaliana unknown protein (At3g18380) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013749407.1	0.0	protein SAWADEE HOMEODOMAIN HOMOLOG 2 isoform X2
Swissprot	Q8RWJ7	0.0	SHH2_ARATH; Protein SAWADEE HOMEODOMAIN HOMOLOG 2
TrEMBL	A0A397ZCG2	0.0	A0A397ZCG2_BRACM; Uncharacterized protein
STRING	Bo5g118650.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7399	24	37

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G18380.1	1e-168	sequence-specific DNA binding transcription factors;sequence-specific DNA binding

Link Out ? help Back to Top
Entrez Gene	106451956

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]