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

XP_009127616.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 200aa MW: 22816.7 Da PI: 6.9457

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009127616.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	23	1.4e-07	88	130	8	55
HHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 8 rErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +E++RR+ i+++ + L+el P++ K + a+ Le veYIksL+ XP_009127616.1 88 MEKKRRQLIRDKVDILQELTPNC-----AKSDLATKLESIVEYIKSLK 130 8*******************8.....69999999********95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	8.64E-12	78	145	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.7E-10	79	141	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	12.341	80	129	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.11E-7	85	133	No hit	No description
SMART	SM00353	7.2E-6	86	135	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	6.0E-5	88	129	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 200 aa Download sequence Send to blast
MEINNNSGTH DEELYSLSEI ISSLSSEHHN ELNPLQEIFG AHSSSSTLSF SEPKDVTKKS 60 NQGDKRSDCN KNNHAGKRQR SMEYRVLMEK KRRQLIRDKV DILQELTPNC AKSDLATKLE 120 SIVEYIKSLK HQIDMMSKAY TEPAGYMAPF YGAQAPCMSP YTSPWCYYAP GIPMMPHQNI 180 PFNPQFHQVY ETAPPNQTQI

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during somatic embryogenesis. {ECO:0000269\|PubMed:26973252}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in somatic embryogenesis. Acts as positive regulator of somatic embryo formation (PubMed:23874927, PubMed:26973252). Acts as positive regulator of ECP63 by targeting its promoter and inducing its expression (PubMed:26973252). {ECO:0000269\|PubMed:23874927, ECO:0000269\|PubMed:26973252}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009127616.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009127616.1	1e-150	PREDICTED: transcription factor bHLH109
Swissprot	Q5XVH0	2e-68	BH109_ARATH; Transcription factor bHLH109
TrEMBL	A0A078FKL2	1e-148	A0A078FKL2_BRANA; BnaA02g13710D protein
TrEMBL	A0A398AGE8	1e-148	A0A398AGE8_BRACM; Uncharacterized protein
STRING	Bo2g057720.1	1e-134	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM15032	14	17

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68240.1	1e-57	bHLH family protein

Publications ? help Back to Top
Gliwicka M,Nowak K,Balazadeh S,Mueller-Roeber B,Gaj MD Extensive modulation of the transcription factor transcriptome during somatic embryogenesis in Arabidopsis thaliana. PLoS ONE, 2013. 8(7): p. e69261 [PMID:23874927] Nowak K,Gaj MD Stress-related function of bHLH109 in somatic embryo induction in Arabidopsis. J. Plant Physiol., 2016. 193: p. 119-26 [PMID:26973252]