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_013627138.1

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: 134aa MW: 15145.1 Da PI: 5.7984

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013627138.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	49.7	6.6e-16	17	93	11	95
HHTT-EE--HHH.HTT---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS B3 11 lksgrlvlpkkfaeehggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 + s +++p f+++h + k+++kt +l++ s + Wev +++ lt+GWk+F+ a++L+ gD+v+Fk++g++ f +v+ XP_013627138.1 17 FHS-GITIPLGFFSKHIERKTNQKTWKLRSdASDKIWEVIQ------EGMRLTGGWKDFATAHDLRIGDIVIFKHEGDMVF--HVT 93 444.59********77788899997888*99......4455*********************9999998..766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.5E-21	3	100	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.16E-21	4	104	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	11.857	6	98	IPR003340	B3 DNA binding domain
CDD	cd10017	3.18E-18	7	95	No hit	No description
SMART	SM01019	1.5E-19	9	98	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.1E-10	18	90	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: 134 aa Download sequence Send to blast
MANPHEPHFL KPLLPGFHSG ITIPLGFFSK HIERKTNQKT WKLRSDASDK IWEVIQEGMR 60 LTGGWKDFAT AHDLRIGDIV IFKHEGDMVF HVTPFGPSCC EIQYTDPDIN KEEADAGDAD 120 DNEITHIASS SRMI

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013627138.1

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	AC189464	1e-142	AC189464.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB075L03, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013590770.1	4e-97	PREDICTED: B3 domain-containing protein REM9-like
Refseq	XP_013613869.1	4e-97	PREDICTED: B3 domain-containing protein REM9-like
Refseq	XP_013627138.1	4e-97	PREDICTED: B3 domain-containing protein REM9-like
Refseq	XP_022560067.1	7e-97	B3 domain-containing protein REM9-like
Refseq	XP_022561374.1	4e-97	B3 domain-containing protein REM9-like isoform X1
Swissprot	O81778	1e-43	REM9_ARATH; B3 domain-containing protein REM9
Swissprot	Q8H2D0	7e-44	REM7_ARATH; B3 domain-containing protein REM7
TrEMBL	A0A0D3B5V2	1e-95	A0A0D3B5V2_BRAOL; Uncharacterized protein
STRING	Bo00774s040.1	2e-96	(Brassica oleracea)
STRING	Bo3g034270.1	2e-96	(Brassica oleracea)
STRING	Bo6g068110.1	2e-96	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM204	22	261

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G31690.1	1e-46	B3 family protein

Publications ? help Back to Top
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] Wang S, et al. Chloroplast RNA-Binding Protein RBD1 Promotes Chilling Tolerance through 23S rRNA Processing in Arabidopsis. PLoS Genet., 2016. 12(5): p. e1006027 [PMID:27138552]