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_013634346.1

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

Protein Properties

Length: 248aa MW: 28627.7 Da PI: 7.2296

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013634346.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	101.3	5.5e-32	39	144	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 f+k ltpsdv+k++rlv+pk++ae++ e++ l +ede+g+ W+++++y+++s++yvltkGW+++vk+++L++gD+++F++++ + XP_013634346.1 39 FEKPLTPSDVGKLNRLVIPKQHAERYfplaaaaADAMEKGLLLCFEDEEGKPWRFRYSYWNSSQSYVLTKGWSRYVKEKQLDAGDVILFHRHRVD 133 99***************************99555568889********************************************87779 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 +++++++++r+ XP_013634346.1 134 GGRFFIGWRRR 144 *******97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	2.9E-40	33	152	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.28E-30	36	144	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.84E-27	38	143	No hit	No description
SMART	SM01019	9.5E-24	39	145	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.4E-29	39	144	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.142	39	145	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: 248 aa Download sequence Send to blast
MSINKYSSDF NYHSLMWQQQ QHPHHHHQNN VVEEKEALFE KPLTPSDVGK LNRLVIPKQH 60 AERYFPLAAA AADAMEKGLL LCFEDEEGKP WRFRYSYWNS SQSYVLTKGW SRYVKEKQLD 120 AGDVILFHRH RVDGGRFFIG WRRRGNSSSS SDSYRHLQSD ASLQYYPHAG AQAVESQRGN 180 SKTLRLFGVN MECQLDSDLS DPSTPDGSTL CPTSHDQFHL YPQQHYPPPY YMDISFTGDV 240 PQTRSPQG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	1e-48	32	144	1	113	B3 domain-containing transcription factor NGA1
5os9_B	1e-48	32	144	1	113	B3 domain-containing transcription factor NGA1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013634346.1

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	AC232575	0.0	AC232575.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrS010A05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013634346.1	0.0	PREDICTED: B3 domain-containing protein At2g36080-like
Swissprot	Q8GYJ2	1e-144	Y2608_ARATH; B3 domain-containing protein At2g36080
TrEMBL	A0A0D3BRN8	0.0	A0A0D3BRN8_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6BJ91	0.0	A0A3P6BJ91_BRAOL; Uncharacterized protein
STRING	Bo4g035110.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1220	28	100

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G36080.1	1e-109	B3 family protein

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] Tanaka M, et al. The Minimum Open Reading Frame, AUG-Stop, Induces Boron-Dependent Ribosome Stalling and mRNA Degradation. Plant Cell, 2016. 28(11): p. 2830-2849 [PMID:27760805]