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

RrC5780_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

C2H2

Protein Properties

Length: 458aa MW: 50900.1 Da PI: 5.7396

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC5780_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.1	0.00014	124	146	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++Cp+Cg +F++ ++ +H ++ RrC5780_p1 124 FECPICGNPFKTEEEVSVHVESC 146 89*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF143503	2.75E-17	180	245	IPR018997	PUB domain
Pfam	PF09409	3.0E-16	183	248	IPR018997	PUB domain
CDD	cd09212	6.99E-20	183	248	No hit	No description
SMART	SM00580	2.6E-22	184	251	IPR018997	PUB domain
SuperFamily	SSF54236	6.2E-12	324	433	IPR029071	Ubiquitin-related domain
PROSITE profile	PS50033	10.227	349	433	IPR001012	UBX domain
Gene3D	G3DSA:3.10.20.90	1.9E-7	349	432	No hit	No description
Pfam	PF00789	2.6E-4	350	400	IPR001012	UBX domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0050832	Biological Process	defense response to fungus
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 458 aa Download sequence Send to blast
MDDVKDKLKG FMKKVNLSSS SGKFKGSGRV LGSSSSFSVP VNPIQNRFNP PQSSNPNPTP 60 RPTKPSPAPS PSAPLPEKPV SSGSPKKPDP DPVRAPPPQD GFDPYGAFIT SSNRSQNGYS 120 LNMFECPICG NPFKTEEEVS VHVESCLGDT TTTNVDEATS DEKVNNDEME KLVVVYLSGK 180 PTESSVDVLL RLFKNIAKEP ENGKFRRVRM SNAKIKEAIG DVAGGVELLE LVGFELKEEN 240 DEIWAVMDVP GGDRTQLINE VFGMLEKRKI EMTRNDEVPV APKKIDREIR VFFSVAENVA 300 SRIEVPDSFY SLSADEIKRE ADLRRKKLAE SQLLIPRSYK EKQAKAARKR YKRSMIRVQF 360 PDGVVLQGVF APWEPTIALY EFVSSALKEP SLQFELLDPV LVKRRVIPHT PAPGQKPRTL 420 EDEELVPSAL IKFRPIETDS LVYTGLCNEL LEISEPLT

Sequence ? help Back to Top

Protein Sequence Length: 458 aa Download sequence Send to blast

MDDVKDKLKG FMKKVNLSSS SGKFKGSGRV LGSSSSFSVP VNPIQNRFNP PQSSNPNPTP  60
RPTKPSPAPS PSAPLPEKPV SSGSPKKPDP DPVRAPPPQD GFDPYGAFIT SSNRSQNGYS  120
LNMFECPICG NPFKTEEEVS VHVESCLGDT TTTNVDEATS DEKVNNDEME KLVVVYLSGK  180
PTESSVDVLL RLFKNIAKEP ENGKFRRVRM SNAKIKEAIG DVAGGVELLE LVGFELKEEN  240
DEIWAVMDVP GGDRTQLINE VFGMLEKRKI EMTRNDEVPV APKKIDREIR VFFSVAENVA  300
SRIEVPDSFY SLSADEIKRE ADLRRKKLAE SQLLIPRSYK EKQAKAARKR YKRSMIRVQF  360
PDGVVLQGVF APWEPTIALY EFVSSALKEP SLQFELLDPV LVKRRVIPHT PAPGQKPRTL  420
EDEELVPSAL IKFRPIETDS LVYTGLCNEL LEISEPLT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ifw_A	1e-12	304	433	23	146	Tether containing UBX domain for GLUT4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	346	354	ARKRYKRSM

Functional Description ? help Back to Top
Source	Description
UniProt	Facilitates the interaction of SYP31 and CDC48A, thereby regulating an CDC48A membrane-associated function (Ref.8). Appears to act as a negative regulator mediating the powdery mildew-plant interaction (PubMed:19176722, PubMed:23301616). {ECO:0000269\|PubMed:19176722, ECO:0000269\|PubMed:23301616, ECO:0000269\|Ref.8}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced in response to powdery mildew and by benzothiadiazole (BTH) treatment. {ECO:0000269\|PubMed:19176722}.

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	AK118911	0.0	AK118911.1 Arabidopsis thaliana At2g01650 mRNA for unknown protein, complete cds, clone: RAFL21-25-I03.
GenBank	AY572782	0.0	AY572782.1 Arabidopsis thaliana CDC48-interacting UBX-domain protein (PUX2) mRNA, complete cds.
GenBank	BT005408	0.0	BT005408.1 Arabidopsis thaliana clone U51117 unknown protein (At2g01650) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013707193.1	0.0	plant UBX domain-containing protein 2-like
Swissprot	Q9ZU93	0.0	PUX2_ARATH; Plant UBX domain-containing protein 2
TrEMBL	A0A0D3DA54	0.0	A0A0D3DA54_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6EXP1	0.0	A0A3P6EXP1_BRAOL; Uncharacterized protein
STRING	Bo7g078630.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9835	16	18

Publications ? help Back to Top
Suzuki T,Park H,Till EA,Lennarz WJ The PUB domain: a putative protein-protein interaction domain implicated in the ubiquitin-proteasome pathway. Biochem. Biophys. Res. Commun., 2001. 287(5): p. 1083-7 [PMID:11587532] Rancour DM,Park S,Knight SD,Bednarek SY Plant UBX domain-containing protein 1, PUX1, regulates the oligomeric structure and activity of arabidopsis CDC48. J. Biol. Chem., 2004. 279(52): p. 54264-74 [PMID:15498773] Chandran D,Rickert J,Cherk C,Dotson BR,Wildermuth MC Host cell ploidy underlying the fungal feeding site is a determinant of powdery mildew growth and reproduction. Mol. Plant Microbe Interact., 2013. 26(5): p. 537-45 [PMID:23301616]