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

Carubv10017696m

Common Name

CARUB_v10017696mg

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: 309aa MW: 35052 Da PI: 7.9726

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10017696m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	107.2	8.2e-34	25	130	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f+kv tpsdv+k++rlv+pk++ae+h +++++++ l +ed+sg+sW+++++y+++s++yv+tkGW++Fvk+++L++gD+v F++d+ Carubv10017696m 25 FDKVVTPSDVGKLNRLVIPKQHAERHfpldnstSNDSNKGLLLNFEDRSGNSWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDIVSFQRDSG 118 89**************************999666678899********************************************9988 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 ++ +l++ ++r+ Carubv10017696m 119 NKDKLYIDWRRR 130 8999***998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	7.6E-43	14	136	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.14E-32	22	133	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.57E-27	23	119	No hit	No description
PROSITE profile	PS50863	14.579	25	131	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.6E-31	25	130	IPR003340	B3 DNA binding domain
SMART	SM01019	8.8E-26	25	131	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: 309 aa Download sequence Send to blast
MNIQEEEKPI NEEASNSSME REHMFDKVVT PSDVGKLNRL VIPKQHAERH FPLDNSTSND 60 SNKGLLLNFE DRSGNSWRFR YSYWNSSQSY VMTKGWSRFV KDKKLDAGDI VSFQRDSGNK 120 DKLYIDWRRR PKIPDHHHHH QASHHPFAGA IFPRFYTYSQ YPQMPTNYES HNLYHRFHQR 180 DLGIGYYVRS MERSHPTAVI ESVPVMMQRR AQVASRGEKR LRLFGVDMEC GSGGGGGSVN 240 NSTEEESSSS GGSMPRGGVS MVGAGSLLQL RLVSSDDESL VAMEAASLED HHFFTKKGKS 300 SLSFDLET*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	7e-63	20	133	3	116	B3 domain-containing transcription factor NGA1
5os9_B	7e-63	20	133	3	116	B3 domain-containing transcription factor NGA1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Regulates lateral organ growth. Functionally redundant with NGA1, NGA3 and NGA4. {ECO:0000269\|PubMed:16603651}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10017696m

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	AL138642	0.0	AL138642.1 Arabidopsis thaliana DNA chromosome 3, BAC clone F21F14.
GenBank	BT025866	0.0	BT025866.1 Arabidopsis thaliana At3g61970 mRNA, complete cds.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006291541.1	0.0	B3 domain-containing transcription factor NGA2
Swissprot	Q9M268	0.0	NGA2_ARATH; B3 domain-containing transcription factor NGA2
TrEMBL	R0H589	0.0	R0H589_9BRAS; Uncharacterized protein
STRING	XP_006291541.1	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
AT3G61970.1	1e-164	B3 family protein

Link Out ? help Back to Top
Phytozome	Carubv10017696m
Entrez Gene	17884933

Publications ? help Back to Top
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] Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife, 2017. [PMID:27710768]