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

Carubv10023656m

Common Name

CARUB_v10023656mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

Protein Properties

Length: 321aa MW: 35895.7 Da PI: 6.1402

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10023656m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	100.5	9.8e-32	43	148	1	99
EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-.SS.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld.gr.. 87 f+kv tpsdv+k++rlv+pk++ae++ ++++e++ l +ed++g+sW+++++y+++s++yv+tkGW++Fvk+++L++gD+v F++ g+ Carubv10023656m 43 FDKVVTPSDVGKLNRLVIPKQHAERFfpldSSSNEKGLLLNFEDLTGKSWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDIVSFQRCvGDsg 136 89**************************66677899***********************************************4433324 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 ++ +l++ ++r+ Carubv10023656m 137 RDSRLFIDWRRR 148 677788888876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	4.2E-41	34	150	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	6.41E-30	40	135	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.70E-24	41	143	No hit	No description
SMART	SM01019	9.5E-23	43	149	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.2E-29	43	148	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.748	43	149	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009908	Biological Process	flower development
GO:0048366	Biological Process	leaf development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 321 aa Download sequence Send to blast
MMTDLSLSRD GEEEEEEDVE KKPSQEEEEE AGAREVAERE HMFDKVVTPS DVGKLNRLVI 60 PKQHAERFFP LDSSSNEKGL LLNFEDLTGK SWRFRYSYWN SSQSYVMTKG WSRFVKDKKL 120 DAGDIVSFQR CVGDSGRDSR LFIDWRRRPK VPDHPHFSAG AMFPRFYSFP STSYNLYNHQ 180 QLQRHHHGGG YNYHQIPREF GYGYFVRSVD QRMNNSAAVV ADPLVIESVP VMLNGGASQG 240 LVGTAGKRLR LFGVDMECGE SGITNSTEEE SSSSGGSLPR GGGGASSSSS LFQLRLGSHS 300 EDDHLISKKG KSSLSFDLDQ *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	5e-80	36	151	1	116	B3 domain-containing transcription factor NGA1
5os9_B	5e-80	36	151	1	116	B3 domain-containing transcription factor NGA1
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Functional Description ? help Back to Top
Source	Description
UniProt	Regulates lateral organ growth. Functionally redundant with NGA2, NGA3 and NGA4. {ECO:0000269\|PubMed:16603651}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10023656m

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	FN428855	0.0	FN428855.1 Arabidopsis halleri subsp. halleri partial BAC clone 7G24 containing mtp1-A1 and mtp-A2 genes.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006294618.1	0.0	B3 domain-containing transcription factor NGA1
Swissprot	O82799	0.0	NGA1_ARATH; B3 domain-containing transcription factor NGA1
TrEMBL	R0FXT0	0.0	R0FXT0_9BRAS; Uncharacterized protein
STRING	Cagra.0050s0013.1.p	0.0	(Capsella grandiflora)
STRING	XP_006294618.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1307	28	99

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G46870.1	1e-153	B3 family protein

Link Out ? help Back to Top
Phytozome	Carubv10023656m
Entrez Gene	17889130

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Lee BH, et al. The Arabidopsis thaliana NGATHA transcription factors negatively regulate cell proliferation of lateral organs. Plant Mol. Biol., 2015. 89(4-5): p. 529-38 [PMID:26433582] Lozano-Sotomayor P, et al. Altered expression of the bZIP transcription factor DRINK ME affects growth and reproductive development in Arabidopsis thaliana. Plant J., 2016. 88(3): p. 437-451 [PMID:27402171] Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife, 2017. [PMID:27710768] Sasnauskas G,Manakova E,Lapėnas K,Kauneckaitė K,Siksnys V DNA recognition by Arabidopsis transcription factors ABI3 and NGA1. FEBS J., 2018. 285(21): p. 4041-4059 [PMID:30183137] Sato H, et al. Arabidopsis thaliana NGATHA1 transcription factor induces ABA biosynthesis by activating NCED3 gene during dehydration stress. Proc. Natl. Acad. Sci. U.S.A., 2018. 115(47): p. E11178-E11187 [PMID:30397148]