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_009146703.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 258aa MW: 28937.9 Da PI: 7.7994

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009146703.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	104.5	5.8e-33	24	135	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 f+k ltpsdv+k++rlv+pk++ae++ +++e+++ l++edesg+sW+++++y+++s++yvltkGW+++vk+++L++gD+v+F XP_009146703.1 24 FEKSLTPSDVGKLNRLVIPKQHAERYlplnncggggdvtAESTEKGVLLSFEDESGKSWKFRYSYWNSSQSYVLTKGWSRYVKDKHLNAGDVVLF 118 99*******************************99997777899*********************************************** PP EE-SS.SEE..EEEEE-S CS B3 83 kldgr.sefelvvkvfrk 99 +++ r + +l+++++r+ XP_009146703.1 119 QRH-RfDIHRLFIGWRRR 135 *65.44888899999987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	9.1E-41	16	144	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	4.71E-31	20	136	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.99E-29	23	124	No hit	No description
SMART	SM01019	4.7E-25	24	136	IPR003340	B3 DNA binding domain
Pfam	PF02362	4.1E-30	24	135	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.676	24	136	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: 258 aa Download sequence Send to blast
MSVNHYSNTL SSHNHHNEHK ESLFEKSLTP SDVGKLNRLV IPKQHAERYL PLNNCGGGGD 60 VTAESTEKGV LLSFEDESGK SWKFRYSYWN SSQSYVLTKG WSRYVKDKHL NAGDVVLFQR 120 HRFDIHRLFI GWRRRGEASS SSAVSAVTQD PRANTTAYWN GLTTPYRQVH ASTSSYPNNI 180 HQEYSHYGPV AETPTVAAGS SKTVRLFGVN LECHSDVVEP PPCPDAYNGQ HIYYYSTPHP 240 MNISFAGEAM EQVGDGRG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	6e-48	20	135	4	113	B3 domain-containing transcription factor NGA1
5os9_B	6e-48	20	135	4	113	B3 domain-containing transcription factor NGA1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.18292	0.0	leaf

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009146703.1

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	AC189547	0.0	AC189547.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH004P05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009146703.1	0.0	PREDICTED: B3 domain-containing protein At3g11580
Swissprot	Q8RYD3	1e-143	Y3158_ARATH; B3 domain-containing protein At3g11580
TrEMBL	M4F182	0.0	M4F182_BRARP; Uncharacterized protein
STRING	Bra034828.1-P	0.0	(Brassica rapa)

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
AT3G11580.1	1e-137	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]