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

RrC3821_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

NAC

Protein Properties

Length: 308aa MW: 35126.1 Da PI: 4.705

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC3821_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	52.6	1.5e-16	49	105	2	59
NAM 2 ppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewy 59 +pGfrFhPt+eel+ +yL++kvegk++++ e i+ +d+y+++Pw+Lp +++ ++++ y RrC3821_p1 49 MPGFRFHPTEEELIEFYLRRKVEGKRFNV-ELITFLDLYRYDPWELPDSLRWKDRSRY 105 69*************************.89*************75555555444 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	2.35E-17	47	108	IPR003441	NAC domain
PROSITE profile	PS51005	15.581	48	239	IPR003441	NAC domain
Pfam	PF02365	7.3E-8	50	115	IPR003441	NAC domain
SMART	SM00177	0.0054	103	279	No hit	No description
Gene3D	G3DSA:3.40.50.300	6.7E-75	108	306	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SuperFamily	SSF52540	2.4E-65	110	281	IPR027417	P-loop containing nucleoside triphosphate hydrolase
PROSITE profile	PS51419	38.727	110	306	No hit	No description
SMART	SM00173	1.9E-34	112	278	No hit	No description
TIGRFAMs	TIGR00231	2.1E-33	113	270	IPR005225	Small GTP-binding protein domain
CDD	cd01869	1.21E-126	113	278	No hit	No description
PRINTS	PR00449	5.1E-45	115	136	No hit	No description
SMART	SM00175	3.0E-106	115	278	No hit	No description
Pfam	PF00071	5.6E-65	116	276	IPR001806	Small GTPase superfamily
SMART	SM00174	2.4E-16	117	277	No hit	No description
SMART	SM00176	3.2E-5	120	305	No hit	No description
PRINTS	PR00449	5.1E-45	138	154	No hit	No description
PRINTS	PR00449	5.1E-45	156	178	No hit	No description
PRINTS	PR00449	5.1E-45	218	231	No hit	No description
PRINTS	PR00449	5.1E-45	253	275	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:0007264	Biological Process	small GTPase mediated signal transduction
GO:0003677	Molecular Function	DNA binding
GO:0005525	Molecular Function	GTP binding

Sequence ? help Back to Top
Protein Sequence Length: 308 aa Download sequence Send to blast
MVSSTTSTIT MSNQVNNDSE KCIEEDGYRH ENHAQNDDEA DDHDHEKIMP GFRFHPTEEE 60 LIEFYLRRKV EGKRFNVELI TFLDLYRYDP WELPDSLRWK DRSRYAMNPE YDYLFKLLLI 120 GDSGVGKSCL LLRFADDSYL DSYISTIGVD FKIRTVEQDG KTIKLQIWDT AGQERFRTIT 180 SSYYRGAHGI IVTYDVTDQE SFNNVKQWLN EIDRYASENV NKLLVGNKND LTSQKVVSTE 240 TAQAFADELG IPFLETSAKN ATNVEEAFMA MTAAIKTRMA SQPSGGAKPP TVQIRGQPVN 300 QQSGCCSS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5szh_B	1e-113	107	306	3	203	Ras-related protein Rab-1B
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER) (By similarity). {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	AF324990	0.0	AF324990.2 Arabidopsis thaliana AT5g47200 (AT5g47200/MQL5_5) mRNA, complete cds.
GenBank	AK227103	0.0	AK227103.1 Arabidopsis thaliana mRNA for ras-related small GTP-binding protein-like, complete cds, clone: RAFL09-74-C18.
GenBank	AY080753	0.0	AY080753.1 Arabidopsis thaliana putative ras-related small GTP-binding protein (At5g47200) mRNA, complete cds.
GenBank	AY085384	0.0	AY085384.1 Arabidopsis thaliana clone 1492 mRNA, complete sequence.
GenBank	AY114013	0.0	AY114013.1 Arabidopsis thaliana putative ras-related small GTP-binding protein (At5g47200) mRNA, complete cds.
GenBank	BT023739	0.0	BT023739.1 Arabidopsis thaliana At5g47200 gene, complete cds.
GenBank	BT025777	0.0	BT025777.1 Arabidopsis thaliana At5g47200 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009114288.1	1e-149	PREDICTED: ras-related protein RABD2b
Refseq	XP_009128948.1	1e-149	PREDICTED: ras-related protein RABD2b
Refseq	XP_013620974.1	1e-149	PREDICTED: ras-related protein RABD2b
Refseq	XP_013677263.1	1e-149	ras-related protein RABD2b
Refseq	XP_013696530.1	1e-149	ras-related protein RABD2b
Refseq	XP_013726230.1	1e-149	ras-related protein RABD2b
Refseq	XP_018440373.1	1e-149	PREDICTED: ras-related protein RABD2b-like isoform X2
Refseq	XP_018452862.1	1e-149	PREDICTED: ras-related protein RABD2b-like
Swissprot	Q9FPJ4	1e-147	RAD2B_ARATH; Ras-related protein RABD2b
TrEMBL	A0A078HTE7	1e-147	A0A078HTE7_BRANA; BnaA02g25090D protein
TrEMBL	A0A0D3AUX4	1e-147	A0A0D3AUX4_BRAOL; Uncharacterized protein
TrEMBL	A0A398AK33	1e-147	A0A398AK33_BRACM; Uncharacterized protein
TrEMBL	M4DLW6	1e-147	M4DLW6_BRARP; Uncharacterized protein
STRING	Bra017497.1-P	1e-148	(Brassica rapa)
STRING	Bra022113.1-P	1e-148	(Brassica rapa)
STRING	Bo2g132250.1	1e-148	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02450.1	1e-33	NAC domain containing protein 35

Publications ? help Back to Top
Vernoud V,Horton AC,Yang Z,Nielsen E Analysis of the small GTPase gene superfamily of Arabidopsis. Plant Physiol., 2003. 131(3): p. 1191-208 [PMID:12644670] Weber H,Chételat A,Reymond P,Farmer EE Selective and powerful stress gene expression in Arabidopsis in response to malondialdehyde. Plant J., 2004. 37(6): p. 877-88 [PMID:14996219] Marmagne A, et al. Identification of new intrinsic proteins in Arabidopsis plasma membrane proteome. Mol. Cell Proteomics, 2004. 3(7): p. 675-91 [PMID:15060130] Holmes-Davis R,Tanaka CK,Vensel WH,Hurkman WJ,McCormick S Proteome mapping of mature pollen of Arabidopsis thaliana. Proteomics, 2005. 5(18): p. 4864-84 [PMID:16247729] Pinheiro H, et al. Genetic evidence that the higher plant Rab-D1 and Rab-D2 GTPases exhibit distinct but overlapping interactions in the early secretory pathway. J. Cell. Sci., 2009. 122(Pt 20): p. 3749-58 [PMID:19789181] Peng J,Ilarslan H,Wurtele ES,Bassham DC AtRabD2b and AtRabD2c have overlapping functions in pollen development and pollen tube growth. BMC Plant Biol., 2011. 11: p. 25 [PMID:21269510]