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

Carubv10005377m

Common Name

CARUB_v10005377mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

Protein Properties

Length: 296aa MW: 33424.3 Da PI: 6.5052

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10005377m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	56.3	6e-18	190	285	1	98
EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-.SS.SEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld.gr.sefel 92 f+ v+++s+v+ ++ l++p k ++++++ +++ + +++ + +W +k++ +++++ +++GWk+Fv++n+L+e D++vF+ + ++ + +l Carubv10005377m 190 FLVVMKRSHVS-KCFLTIPYKWCKKNNLLARQE--V-VMQIDQMKWVMKFNLFGSRCSGGISTGWKKFVQDNNLCESDVCVFEPMkSEkQPLHL 279 55566555555.567*********8886664..4.466778888888877777777679********************77244555666 PP EEEEE- CS B3 93 vvkvfr 98 +v +fr Carubv10005377m 280 YVYIFR 285 666665 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50863	8.473	1	32	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	6.1E-5	2	30	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.35E-5	2	30	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	10.489	189	287	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	3.2E-17	190	285	IPR015300	DNA-binding pseudobarrel domain
Pfam	PF02362	8.7E-16	190	285	IPR003340	B3 DNA binding domain
SuperFamily	SSF101936	7.85E-19	190	285	IPR015300	DNA-binding pseudobarrel domain
SMART	SM01019	4.2E-16	190	287	IPR003340	B3 DNA binding domain
CDD	cd10017	8.08E-16	190	285	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0005773	Cellular Component	vacuole
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 296 aa Download sequence Send to blast
MFVKDHSLKE NDLLVFKFHG LSEFEVLIFD GQTLCEKPTS YFVRKCGHAD KTKCTDFTAT 60 SSRSPEILFN PVDVEATPNQ QRLISPVDNE LDDLIDIDVD IETMLTPHLV VSQTGCEQLE 120 HFNSDIDTAY AQIPVISPAS TGRVSEEKYP LSGLKKMQGE INNDSLDHKA AGRKNKTLSL 180 AQRVITPDGF LVVMKRSHVS KCFLTIPYKW CKKNNLLARQ EVVMQIDQMK WVMKFNLFGS 240 RCSGGISTGW KKFVQDNNLC ESDVCVFEPM KSEKQPLHLY VYIFRVAEAE STNKG*

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00468	DAP	Transfer from AT4G33280	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10005377m

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AJ441117	1e-123	AJ441117.1 Arabidopsis thaliana mRNA for auxin response factor 36 (arf36 gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006284220.2	0.0	LOW QUALITY PROTEIN: B3 domain-containing protein REM16
Swissprot	Q8RYD1	1e-113	REM16_ARATH; B3 domain-containing protein REM16
TrEMBL	R0H0Z0	0.0	R0H0Z0_9BRAS; Uncharacterized protein
STRING	XP_006284220.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10428	23	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G33280.1	1e-107	B3 family protein

Link Out ? help Back to Top
Phytozome	Carubv10005377m
Entrez Gene	17880507

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]