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_013634584.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 224aa MW: 25502.5 Da PI: 10.8942

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013634584.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	18.4	3.8e-06	99	153	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC......TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkas...kapskKlsKaeiLekAveYIksLq 55 hn E+rRR++iN+++ L+++ + + ++ + K+ +A+eY+k Lq XP_013634584.1 99 FHNLSEKRRRSKINEKMKALQKMKALQKrilNSNNCRQIKSPCFDEAIEYLKLLQ 153 6******************999855544467779999999999999999999887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	9.832	95	152	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.62E-9	98	179	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.5E-8	99	166	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: 224 aa Download sequence Send to blast
MSKSKMGSSH HSFCHLHPTN SLAFSGKFCH VLRQPNLPHP RETFHPLRCS TGTFLSFSAE 60 QFLAQAMRSL KLGETNVLLR TRNGVRQRNS LKRNIDTQFH NLSEKRRRSK INEKMKALQK 120 MKALQKRILN SNNCRQIKSP CFDEAIEYLK LLQLQVQQTL AVMNGLGLNP QRLPPVLPPT 180 QTRINGTLEQ DLNFGTLLGA SHSLVNREPP ESTQEMCFST DTLL

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_013634584.1

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	FR727234	1e-38	FR727234.1 Lepidium appelianum mRNA for ALCATRAZ-like protein (alc gene).
GenBank	FR727240	1e-38	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_013634584.1	1e-164	PREDICTED: transcription factor ALC-like isoform X1
Swissprot	Q9FHA2	5e-56	ALC_ARATH; Transcription factor ALC
TrEMBL	A0A3N6RFN6	1e-133	A0A3N6RFN6_BRACR; Uncharacterized protein (Fragment)
STRING	Bo4g137430.1	5e-76	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM30672	2	2

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G67110.1	5e-50	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]