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

Carubv10007747m

Common Name

CARUB_v10007747mg

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

MYB

Protein Properties

Length: 172aa MW: 19911.5 Da PI: 9.1437

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10007747m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	50.3	5.7e-16	46	88	4	47
S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 WT+ Ed++l ++v+ +G ++W++I ++m+ +R++k+c+ rw++ Carubv10007747m 46 WTESEDLKLTELVAAHGFDNWDLIGEKMQ-TRSGKSCRVRWFNQ 88 ***************************.*********996 PP
2	Myb_DNA-binding	46.9	6.5e-15	96	140	2	48
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 ++T+eE+ ++v ++ +G+ W +Iar++ gRt+++++++w+ +l Carubv10007747m 96 APFTEEEERIIVSSHNYYGNQ-WVKIARHLK-GRTENDVRHHWNYHL 140 68***************99.****9.*********9875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	12.51	36	89	IPR017930	Myb domain
SMART	SM00717	7.7E-13	42	91	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	3.67E-27	44	136	IPR009057	Homeodomain-like
Pfam	PF00249	1.1E-15	45	88	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.3E-23	45	96	IPR009057	Homeodomain-like
CDD	cd00167	6.85E-13	46	87	No hit	No description
PROSITE profile	PS51294	21.868	90	144	IPR017930	Myb domain
SMART	SM00717	4.6E-14	94	142	IPR001005	SANT/Myb domain
Pfam	PF00249	2.9E-13	96	140	IPR001005	SANT/Myb domain
CDD	cd00167	3.28E-11	97	140	No hit	No description
Gene3D	G3DSA:1.10.10.60	1.7E-19	97	142	IPR009057	Homeodomain-like

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: 172 aa Download sequence Send to blast
MDLFLYICNI VLEETLNGVG ANNALPSTET QQEKRKMSSR GGLRHWTESE DLKLTELVAA 60 HGFDNWDLIG EKMQTRSGKS CRVRWFNQLD PTINRAPFTE EEERIIVSSH NYYGNQWVKI 120 ARHLKGRTEN DVRHHWNYHL NRPARGSHIK PKTRYFTPPM NPHGYPGLCP L*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	2e-27	46	142	10	106	B-MYB
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that involved in boundary specification, meristem initiation and maintenance, and organ patterning. Functions in both lateral organ separation and axillary meristem formation. {ECO:0000269\|PubMed:19542355}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10007747m

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023635363.1	1e-112	transcription factor CSA
Swissprot	Q9SEZ4	8e-37	MY105_ARATH; Transcription factor MYB105
TrEMBL	R0FBF8	1e-126	R0FBF8_9BRAS; Uncharacterized protein
STRING	XP_006286183.1	1e-127	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM17330	3	10

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G39700.1	6e-51	myb domain protein 89

Link Out ? help Back to Top
Phytozome	Carubv10007747m
Entrez Gene	17880744

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]