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

Carubv10006357m

Common Name

CARUB_v10006357mg

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

Nin-like

Protein Properties

Length: 687aa MW: 76357 Da PI: 7.3341

Description

Nin-like family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10006357m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	RWP-RK	90.6	1.2e-28	415	465	2	52
RWP-RK 2 ekeisledlskyFslpikdAAkeLgvclTvLKriCRqyGIkRWPhRkiksl 52 e++i+le+l+++F++++kdAAk++gvc+T+LKriCRq+GI+RWP+Rkik++ Carubv10006357m 415 EHDITLETLRQHFAGSLKDAAKNIGVCPTTLKRICRQHGISRWPSRKIKKV 465 789**********************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.450.40	9.1E-4	207	329	IPR029016	GAF domain-like
PROSITE profile	PS51519	17.268	401	485	IPR003035	RWP-RK domain
Pfam	PF02042	6.6E-26	418	465	IPR003035	RWP-RK domain
Gene3D	G3DSA:3.10.20.240	7.0E-19	589	676	No hit	No description
SuperFamily	SSF54277	3.92E-19	591	678	No hit	No description
PROSITE profile	PS51745	22.663	592	677	IPR000270	PB1 domain
SMART	SM00666	1.0E-21	592	677	IPR000270	PB1 domain
CDD	cd06407	3.85E-37	593	676	No hit	No description
Pfam	PF00564	1.1E-15	593	676	IPR000270	PB1 domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006107	Biological Process	oxaloacetate metabolic process
GO:0006108	Biological Process	malate metabolic process
GO:0005515	Molecular Function	protein binding
GO:0050152	Molecular Function	omega-amidase activity

Sequence ? help Back to Top
Protein Sequence Length: 687 aa Download sequence Send to blast
MEEISNNSGV VDFPENFMDE FLWEEQCWEE DALSSPAGLK ERVTCAMGHL QEVLMGEREL 60 LIQLWVPVER RSGRVLRTED QPYSLNPFSQ SQSQSLALYR DASAGYSFAA ELGSDQPVGL 120 PGRVFLRRMP EWTPDVRFFT SEEYPRIGYA RMYKVRASLA LPLFQGASGN CVAVMEMVTT 180 RRSLEHASQL HTICHALQAF DLRTSQTSIV PASLKLHTEV ASILQGICSS HGLPLAITWG 240 HQDDSSSLSA ITSACYAADQ DSRCFLAACS EHHLFGGQGI AGRAFATKKQ CFATDVAIFS 300 KWSHPLSHYA RMLDLHAALA VPLLTRRNRT VQFVLEFFFP RDCLDIQTQR LTLASQLNIH 360 FQSSPHLMVD DQLAEEVRDT ATPLTDEDPK GKQQVSLSFS SSSSLESRKR KTKAEHDITL 420 ETLRQHFAGS LKDAAKNIGV CPTTLKRICR QHGISRWPSR KIKKVGHSLR KLQVVIDSVE 480 GVQGSLHLAS FYSSFPQLQS SSTSSFPLIN PTQTIHVPPK SPPSSSGSQS SSGSSTCCSS 540 EEQQLGGFQK PALSHPQVLP LSILHEDQRP ARVTSSLPPL PSATAPRKAK EGMKVKAMFR 600 DSMLRMCLQP HSCLADLRRE IAKRFGMDDV LTSNFVLKYM DDDQEWVLLT CEADLEECIQ 660 VYKSSLEKTI RILVHHPLSL SLSPLL*

Sequence ? help Back to Top

Protein Sequence Length: 687 aa Download sequence Send to blast

MEEISNNSGV VDFPENFMDE FLWEEQCWEE DALSSPAGLK ERVTCAMGHL QEVLMGEREL  60
LIQLWVPVER RSGRVLRTED QPYSLNPFSQ SQSQSLALYR DASAGYSFAA ELGSDQPVGL  120
PGRVFLRRMP EWTPDVRFFT SEEYPRIGYA RMYKVRASLA LPLFQGASGN CVAVMEMVTT  180
RRSLEHASQL HTICHALQAF DLRTSQTSIV PASLKLHTEV ASILQGICSS HGLPLAITWG  240
HQDDSSSLSA ITSACYAADQ DSRCFLAACS EHHLFGGQGI AGRAFATKKQ CFATDVAIFS  300
KWSHPLSHYA RMLDLHAALA VPLLTRRNRT VQFVLEFFFP RDCLDIQTQR LTLASQLNIH  360
FQSSPHLMVD DQLAEEVRDT ATPLTDEDPK GKQQVSLSFS SSSSLESRKR KTKAEHDITL  420
ETLRQHFAGS LKDAAKNIGV CPTTLKRICR QHGISRWPSR KIKKVGHSLR KLQVVIDSVE  480
GVQGSLHLAS FYSSFPQLQS SSTSSFPLIN PTQTIHVPPK SPPSSSGSQS SSGSSTCCSS  540
EEQQLGGFQK PALSHPQVLP LSILHEDQRP ARVTSSLPPL PSATAPRKAK EGMKVKAMFR  600
DSMLRMCLQP HSCLADLRRE IAKRFGMDDV LTSNFVLKYM DDDQEWVLLT CEADLEECIQ  660
VYKSSLEKTI RILVHHPLSL SLSPLL*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	406	411	SRKRKT

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10006357m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by nitrate. {ECO:0000269\|PubMed:15375205}.

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	AC069558	0.0	AC069558.5 Genomic Sequence For Arabidopsis thaliana Clone T5G13 From Chromosome IV, complete sequence.
GenBank	AL035538	0.0	AL035538.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F20D10 (ESSA project).
GenBank	AL035539	0.0	AL035539.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F22I13 (ESSA project).
GenBank	AL161593	0.0	AL161593.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 89.
GenBank	CP002687	0.0	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006285049.1	0.0	protein NLP3
Refseq	XP_023634611.1	0.0	protein NLP3
Swissprot	Q9SVF1	0.0	NLP3_ARATH; Protein NLP3
TrEMBL	R0F7T3	0.0	R0F7T3_9BRAS; Uncharacterized protein
STRING	XP_006285049.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM15287	17	18

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G38340.1	0.0	Nin-like family protein

Link Out ? help Back to Top
Phytozome	Carubv10006357m
Entrez Gene	17878578

Publications ? help Back to Top
Doidy J, et al. "Hit-and-Run" transcription: de novo transcription initiated by a transient bZIP1 "hit" persists after the "run". BMC Genomics, 2016. 17: p. 92 [PMID:26843062]