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

Rsa1.0_22167.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

Protein Properties

Length: 150aa MW: 17835 Da PI: 10.2184

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_22167.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	105.9	2.1e-33	21	123	1	99
EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 f+kv tpsdv+k++rlv+pk++ae++ +++++++ l +ed++g+sW+++++y+++s++yv+tkGW++Fvk+++L++gD+v F Rsa1.0_22167.1_g00001.1 21 FDKVVTPSDVGKLNRLVIPKQHAERFfpldNSDNNKGLLLNFEDRTGNSWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDIVSF 106 89**************************66677889********************************************** PP EE-SSSEE..EEEEE-S CS B3 83 kldgrsefelvvkvfrk 99 ++d ++ +l++ ++r+ Rsa1.0_22167.1_g00001.1 107 QRDPGNKDKLFIDWRRR 123 996677789***998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	5.9E-44	11	126	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.22E-32	18	125	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.43E-26	19	112	No hit	No description
PROSITE profile	PS50863	14.692	21	124	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.6E-30	21	123	IPR003340	B3 DNA binding domain
SMART	SM01019	1.1E-23	21	124	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 150 aa Download sequence Send to blast
MNQEEEKPVE KASSMEREHM FDKVVTPSDV GKLNRLVIPK QHAERFFPLD NSDNNKGLLL 60 NFEDRTGNSW RFRYSYWNSS QSYVMTKGWS RFVKDKKLDA GDIVSFQRDP GNKDKLFIDW 120 RRRPKILDHH HQTAYQFSGA TFPCRQRRHG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	2e-67	16	126	3	116	B3 domain-containing transcription factor NGA1
5os9_B	2e-67	16	126	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	Rsa1.0_22167.1_g00001.1

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC172877	1e-154	AC172877.1 Brassica rapa subsp. oleifera cultivar Inbred line 'Chiifu' clone KBrH042F19, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018443583.1	1e-102	PREDICTED: B3 domain-containing transcription factor NGA2-like
Swissprot	Q9M268	1e-85	NGA2_ARATH; B3 domain-containing transcription factor NGA2
TrEMBL	A0A1J3EP29	5e-91	A0A1J3EP29_NOCCA; B3 domain-containing transcription factor NGA2
TrEMBL	A0A1J3IP05	5e-91	A0A1J3IP05_NOCCA; B3 domain-containing transcription factor NGA2
STRING	Bo6g079210.1	8e-91	(Brassica oleracea)
STRING	XP_006402424.1	2e-90	(Eutrema salsugineum)

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	5e-88	B3 family protein

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]