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_013612508.1

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

NAC

Protein Properties

Length: 342aa MW: 39002.4 Da PI: 7.2016

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013612508.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	172.5	1.2e-53	9	138	1	129
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvka...eekewyfFskrdkkyatgkrknratksgyWkatgkdkev 92 +ppGfrFhPtdeel+++yLkkk++ +k+e+ evi+evd++k+ePwdL++++k ++ewyfFs++d+ky+tg+r+nrat++g+Wkatg+dk + XP_013612508.1 9 VPPGFRFHPTDEELLHYYLKKKISYQKFEM-EVIREVDLNKLEPWDLQERCKIgsmPQNEWYFFSHKDRKYPTGSRTNRATHAGFWKATGRDKCI 102 69**************************.99**********964444223556********************************** PP NAM 93 lskkgelvglkktLvfykgrapkgektdWvmheyrle 129 + + +++g++ktLvfykgrap+g+ktdW+mheyrle XP_013612508.1 103 RN-SYKKIGMRKTLVFYKGRAPHGQKTDWIMHEYRLE 138 9.8999***************************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.57E-60	8	160	IPR003441	NAC domain
PROSITE profile	PS51005	58.036	9	160	IPR003441	NAC domain
Pfam	PF02365	5.9E-28	10	137	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 342 aa Download sequence Send to blast
MGSSSNGGVP PGFRFHPTDE ELLHYYLKKK ISYQKFEMEV IREVDLNKLE PWDLQERCKI 60 GSMPQNEWYF FSHKDRKYPT GSRTNRATHA GFWKATGRDK CIRNSYKKIG MRKTLVFYKG 120 RAPHGQKTDW IMHEYRLEDA DDPQGNLSED GWVVCRVFMK KNLFKVVNDG GSSINSADQY 180 NHDASNNNNN TLQARSFMHG DSPYQLVRNH GATTFELNKP DLSLHQYPPI FHKPPSLGVD 240 YSSGFPRDCE SAASEGLQYQ QACEPGLEVG TSETVANHNH QQGLGEWSMM DRLVTCHLGN 300 EDSSRGIRFE DGNNNSSAVV QPVPTSNQLS LRSEMDFWGY SK

Sequence ? help Back to Top

Protein Sequence Length: 342 aa Download sequence Send to blast

MGSSSNGGVP PGFRFHPTDE ELLHYYLKKK ISYQKFEMEV IREVDLNKLE PWDLQERCKI  60
GSMPQNEWYF FSHKDRKYPT GSRTNRATHA GFWKATGRDK CIRNSYKKIG MRKTLVFYKG  120
RAPHGQKTDW IMHEYRLEDA DDPQGNLSED GWVVCRVFMK KNLFKVVNDG GSSINSADQY  180
NHDASNNNNN TLQARSFMHG DSPYQLVRNH GATTFELNKP DLSLHQYPPI FHKPPSLGVD  240
YSSGFPRDCE SAASEGLQYQ QACEPGLEVG TSETVANHNH QQGLGEWSMM DRLVTCHLGN  300
EDSSRGIRFE DGNNNSSAVV QPVPTSNQLS LRSEMDFWGY SK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3ulx_A	6e-52	9	162	15	170	Stress-induced transcription factor NAC1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Detectable in lateral root development when they reach 10 mm long. {ECO:0000269\|PubMed:20197506}.
Uniprot	TISSUE SPECIFICITY: Expressed throughout the root cap, in both columella (COL) and lateral root cap (LRC) cells, with higher levels in the COL-adjoining LRC than the upper LRC. Also present at low levels expression in the tips of cotyledons and the cotyledon vasculature, as weel as in vasculature of the first pair of true leaves and at the hydathodes. {ECO:0000269\|PubMed:20197506}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator. Together with BRN1 and SMB, regulates cellular maturation of root cap. Promotes the expression of genes involved in secondary cell walls (SCW) biosynthesis. {ECO:0000269\|PubMed:20197506}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013612508.1

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	AY133681	0.0	AY133681.1 Arabidopsis thaliana clone C103095 putative NAM/NAP (At4g10350) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013612508.1	0.0	PREDICTED: protein BEARSKIN2-like
Swissprot	Q9SV87	0.0	BRN2_ARATH; Protein BEARSKIN2
TrEMBL	A0A0D3E8X6	0.0	A0A0D3E8X6_BRAOL; Uncharacterized protein
STRING	Bo9g088300.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5213	26	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G10350.1	0.0	NAC domain containing protein 70

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Kamiya M, et al. Control of root cap maturation and cell detachment by BEARSKIN transcription factors in Arabidopsis. Development, 2016. 143(21): p. 4063-4072 [PMID:27803060]