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

RrC20516_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

HD-ZIP

Protein Properties

Length: 154aa MW: 17820 Da PI: 7.9394

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC20516_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	56.4	4.9e-18	7	62	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 r k+ ++t+eq+++Le++F n+++ + + +L++ lgL++rqV vWFqN+Ra+ k RrC20516_p1 7 RNKKKRLTQEQVRQLEKCFTLNNKLEPDLKLQLSNTLGLPQRQVAVWFQNKRARSK 62 567889************************************************99 PP
2	HD-ZIP_I/II	104.5	8.5e-34	8	100	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 +kk+rl++eqv++LE++F+ ++kLep+ K +l+++Lgl +rqvavWFqn+RAR kt+ lE +y L+++++a+ +++++Le++v+ L++elk+ RrC20516_p1 8 NKKKRLTQEQVRQLEKCFTLNNKLEPDLKLQLSNTLGLPQRQVAVWFQNKRARSKTQSLELQYCNLQSKLEAVLSDKAKLENQVQFLQDELKR 100 59****************************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	2.4E-17	3	67	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.86	4	64	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.63E-17	4	65	IPR009057	Homeodomain-like
SMART	SM00389	1.4E-16	6	68	IPR001356	Homeobox domain
CDD	cd00086	9.09E-14	7	65	No hit	No description
Pfam	PF00046	1.6E-15	7	62	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	39	62	IPR017970	Homeobox, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009637	Biological Process	response to blue light
GO:0009646	Biological Process	response to absence of light
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 154 aa Download sequence Send to blast
MENPQSRNKK KRLTQEQVRQ LEKCFTLNNK LEPDLKLQLS NTLGLPQRQV AVWFQNKRAR 60 SKTQSLELQY CNLQSKLEAV LSDKAKLENQ VQFLQDELKR SRNQLALFTH QDSPVDNSNL 120 GSCEEGHDDQ VMVFDELYDC FVTNGRGSSS TSWV

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

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	AB007644	1e-142	AB007644.1 Arabidopsis thaliana genomic DNA, chromosome 5, TAC clone: K19P17.
GenBank	AK229211	1e-142	AK229211.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL16-49-M21.
GenBank	BT015927	1e-142	BT015927.1 Arabidopsis thaliana At5g53980 mRNA, complete cds.
GenBank	BT021920	1e-142	BT021920.1 Arabidopsis thaliana At5g53980 gene, complete cds.
GenBank	CP002688	1e-142	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018469586.1	1e-108	PREDICTED: homeobox-leucine zipper protein ATHB-52
Swissprot	Q9FN29	8e-93	ATB52_ARATH; Homeobox-leucine zipper protein ATHB-52
TrEMBL	A0A078JVD7	1e-100	A0A078JVD7_BRANA; BnaCnng64030D protein
STRING	Bostr.26833s0878.1.p	2e-94	(Boechera stricta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12107	26	32

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G53980.1	3e-95	homeobox protein 52