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

Carubv10002831m

Common Name

CARUB_v10002831mg

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

HD-ZIP

Protein Properties

Length: 167aa MW: 19607 Da PI: 6.5322

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10002831m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	56.5	4.8e-18	86	137	5	56
SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 ++ +eql Le F+++ +++e++ +LA++lgL+ rqV vWFqNrRa++k Carubv10002831m 86 KRLASEQLASLELRFQEDFRLDTERKFKLAEELGLEPRQVAVWFQNRRARWK 137 56889**********************************************9 PP
2	HD-ZIP_I/II	104.1	1.1e-33	83	165	1	83
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLeke 83 +k +rl++eq+++LE F+e+ +L++erK +la+eLgl+prqvavWFqnrRAR+k k+lE+ y++L+++yda+ +e+++L++e Carubv10002831m 83 RKNKRLASEQLASLELRFQEDFRLDTERKFKLAEELGLEPRQVAVWFQNRRARWKVKHLEESYDSLRQEYDAVWREKQMLHDE 165 589*****************************************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	6.42E-18	72	138	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.4E-18	77	144	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.795	79	139	IPR001356	Homeobox domain
SMART	SM00389	2.0E-15	82	143	IPR001356	Homeobox domain
CDD	cd00086	2.06E-13	83	140	No hit	No description
Pfam	PF00046	1.9E-15	85	137	IPR001356	Homeobox domain
PRINTS	PR00031	1.0E-5	110	119	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	114	137	IPR017970	Homeobox, conserved site
PRINTS	PR00031	1.0E-5	119	135	IPR000047	Helix-turn-helix motif

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:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 167 aa Download sequence Send to blast
MEWSMTNNVQ NKRADSLPQP QPWLESNYSN SLCSVNYNPY AGNSSCNKPA YTQTGPVISI 60 PESEKIIFKA YQCDPGNNNE MIRKNKRLAS EQLASLELRF QEDFRLDTER KFKLAEELGL 120 EPRQVAVWFQ NRRARWKVKH LEESYDSLRQ EYDAVWREKQ MLHDEV*

Functional Description ? help Back to Top
Source	Description
UniProt	Putative transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10002831m

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	KM214233	2e-95	KM214233.1 Capsella grandiflora isolate C.g926a RCO-A (RCO-A) gene, complete cds.
GenBank	KM214234	2e-95	KM214234.1 Capsella grandiflora isolate C.g926b RCO-A (RCO-A) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006289347.2	1e-122	putative homeobox-leucine zipper protein ATHB-51
Swissprot	Q9LZR0	8e-68	ATB51_ARATH; Putative homeobox-leucine zipper protein ATHB-51
TrEMBL	R0HB51	1e-121	R0HB51_9BRAS; Uncharacterized protein
STRING	XP_006289347.1	1e-121	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1660	28	88

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G03790.1	3e-70	homeobox 51

Link Out ? help Back to Top
Phytozome	Carubv10002831m
Entrez Gene	17884511

Publications ? help Back to Top
Andres RJ, et al. Modifications to a LATE MERISTEM IDENTITY1 gene are responsible for the major leaf shapes of Upland cotton (Gossypium hirsutum L.). Proc. Natl. Acad. Sci. U.S.A., 2017. 114(1): p. E57-E66 [PMID:27999177] Vuolo F, et al. LMI1 homeodomain protein regulates organ proportions by spatial modulation of endoreduplication. Genes Dev., 2018. 32(21-22): p. 1361-1366 [PMID:30366902]