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_009103858.1

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: 283aa MW: 31894.3 Da PI: 4.4693

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009103858.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	61.4	1.5e-19	13	103	1	99
EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 ffkv+ + ++s + +p +f+e+ + + ++t +l+ g +W+v + +k ++ ++t+GW++F+++++Lk g+f++F +dg+++f v+ XP_009103858.1 13 FFKVF--LSETASESMAIPMSFIEHLEDP--LPQTAKLQGIGGGVWTVSF--KKIRDCAYFTSGWSKFAEDHELKHGEFLTFVYDGSHTF--EVS 99 88999..666777779*****666655..889************..99998899**********************998888..888 PP EE-S CS B3 96 vfrk 99 vf + XP_009103858.1 100 VFGR 103 8766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.29E-25	7	106	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.6E-23	9	106	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	13.888	11	104	IPR003340	B3 DNA binding domain
CDD	cd10017	4.08E-20	11	101	No hit	No description
Pfam	PF02362	8.0E-17	13	102	IPR003340	B3 DNA binding domain
SMART	SM01019	2.2E-23	13	104	IPR003340	B3 DNA binding domain
SuperFamily	SSF101936	2.16E-9	186	268	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.6E-6	186	268	IPR015300	DNA-binding pseudobarrel domain
SMART	SM01019	0.36	189	278	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: 283 aa Download sequence Send to blast
MSESEEDVDL PRFFKVFLSE TASESMAIPM SFIEHLEDPL PQTAKLQGIG GGVWTVSFKK 60 IRDCAYFTSG WSKFAEDHEL KHGEFLTFVY DGSHTFEVSV FGRSGCKEIR AEVETVELSD 120 ANSDKEEEDS SVVADSNEEE EEGDDDSSFI AGEDDEVSQS LSHVDSDDTV SNAEVVAGFS 180 NLEVESNPCF TTTLKNRIYE LLIPANVVKE HGLTFCDRIK YIDGEGIMHG AKGKWSDDRI 240 CFKGWDRICR RNRLKERDTV HCEMLHIRNK VHTIKITVTR GRG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1yel_A	1e-18	12	106	10	104	At1g16640
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009103858.1

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	AC189222	1e-127	AC189222.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB010M19, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009103858.1	0.0	PREDICTED: B3 domain-containing protein REM20-like
Swissprot	Q8LAV5	1e-102	REM20_ARATH; B3 domain-containing protein REM20
TrEMBL	M4CFZ8	0.0	M4CFZ8_BRARP; Uncharacterized protein
STRING	Bra003130.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1561	23	80

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G53310.1	1e-100	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] Mantegazza O, et al. Analysis of the arabidopsis REM gene family predicts functions during flower development. Ann. Bot., 2014. 114(7): p. 1507-15 [PMID:25002525]