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_009129261.1

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: 149aa MW: 17121.9 Da PI: 10.8626

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009129261.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	51	2.5e-16	33	79	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn ErrRR +iN+++ L++l+P++ K +Ka++L +A++Y+k+Lq XP_009129261.1 33 FHNLSERRRRCKINEKMKSLQKLIPNS-----NKTDKASMLDEAIKYLKQLQ 79 6***********************7.....5****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	17.047	29	78	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.06E-19	33	101	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	8.1E-14	33	79	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.5E-18	34	87	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.56E-14	34	83	No hit	No description
SMART	SM00353	3.9E-18	35	84	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: 149 aa Download sequence Send to blast
MAFKVEGRED LVTLKRNGAR QRNSLKRNIN AQFHNLSERR RRCKINEKMK SLQKLIPNSN 60 KTDKASMLDE AIKYLKQLQL QVQTLAVMND LCLNPMRLPP VLPPTQTRFN GTLQQEQHFA 120 TLLGAPHSMV NHEPPRATQE MCFSTATLL

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed constitutively in roots, leaves, stems, and flowers. Confined to the valve margins of the silique. {ECO:0000269\|PubMed:11747817, ECO:0000269\|PubMed:12679534}.

Functional Description ? help Back to Top
Source	Description
UniProt	Required for the dehiscence of fruit, especially for the separation of the valve cells from the replum. Promotes the differentiation of a strip of labile nonlignified cells sandwiched between layers of lignified cells. {ECO:0000269\|PubMed:11747817}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009129261.1

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	FR727240	1e-93	FR727240.1 Lepidium campestre mRNA for ALCATRAZ-like protein (alc gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009129261.1	1e-107	PREDICTED: transcription factor ALC-like
Swissprot	Q9FHA2	3e-68	ALC_ARATH; Transcription factor ALC
TrEMBL	A0A087GET6	3e-73	A0A087GET6_ARAAL; Uncharacterized protein
STRING	A0A087GET6	5e-74	(Arabis alpina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13982	17	24

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G67110.1	1e-70	bHLH family protein

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] Pfannebecker KC,Lange M,Rupp O,Becker A Seed Plant-Specific Gene Lineages Involved in Carpel Development. Mol. Biol. Evol., 2017. 34(4): p. 925-942 [PMID:28087776] Zumajo-Cardona C,Ambrose BA,Pabón-Mora N Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae). Evodevo, 2017. 8: p. 5 [PMID:28331573] He H, et al. CELLULASE6 and MANNANASE7 Affect Cell Differentiation and Silique Dehiscence. Plant Physiol., 2018. 176(3): p. 2186-2201 [PMID:29348141]