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

Csa13g034280.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

M-type_MADS

Protein Properties

Length: 512aa MW: 57132.9 Da PI: 9.7632

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa13g034280.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	22	2.1e-07	22	61	4	43
-SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TT CS SRF-TF 4 enksnrqvtfskRrngilKKAeELSvLCdaevaviifsst 43 e k +r v skRr++++ A L+ L +a+ av + s++ Csa13g034280.1 22 ETKQQRAVACSKRRQTVFSRAADLCHLSGANLAVFVTSPS 61 77899*******************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.0E-12	11	70	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	11.718	11	61	IPR002100	Transcription factor, MADS-box
CDD	cd00266	1.66E-18	12	94	No hit	No description
SuperFamily	SSF55455	1.83E-14	13	104	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.4E-6	22	61	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF89124	2.88E-77	154	376	IPR002687	Nop domain
SMART	SM00931	1.4E-26	158	210	IPR012976	NOSIC
Pfam	PF01798	1.9E-68	166	373	IPR002687	Nop domain
PROSITE profile	PS51358	27.815	256	377	IPR002687	Nop domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 512 aa Download sequence Send to blast
MTSSESTMKK GTKRKIEIKK RETKQQRAVA CSKRRQTVFS RAADLCHLSG ANLAVFVTSP 60 SEISDVVYSF SGYSPAQEIA DCYLNGKPPP KIKPQSQAQG FWWEDPDLYN SCDDLSELNI 120 IEDRIERAKK HVMACLEKIE QRGKLGTKRL PLFQVDTMII QAIGLFDDLD KELNTYAMRV 180 REWYGWHFPE LAKIVQDNTL YAKAILSDEV VEAGLKEASV ISMGTEVSDL DLLHIRELCD 240 QVLSLAEYRA QLYDYLKSRM NTIAPNLTAL VGACLISHGG SLLNLSKQPE STVQILGAEK 300 ALFRALKTKH ATPKYGLIYH ASVVGQAAPK HKGKISRSLA AKPALAIRCD ALGDGQDSTM 360 GVENRVKLEA RLRNLEGRDI GRLSGSAKGK PKVEVYDKDK KKGSGGLITP AKVRLLPCFK 420 RFPQLAFVIM FEKLVKQSLL KTPTGDSENG VKEKEDKKKK KADDEEEAKT KEPSKKKSKK 480 KKSEVEPETV EPAKKEKRKR KHEEEEAEMP A*

Sequence ? help Back to Top

Protein Sequence Length: 512 aa Download sequence Send to blast

MTSSESTMKK GTKRKIEIKK RETKQQRAVA CSKRRQTVFS RAADLCHLSG ANLAVFVTSP  60
SEISDVVYSF SGYSPAQEIA DCYLNGKPPP KIKPQSQAQG FWWEDPDLYN SCDDLSELNI  120
IEDRIERAKK HVMACLEKIE QRGKLGTKRL PLFQVDTMII QAIGLFDDLD KELNTYAMRV  180
REWYGWHFPE LAKIVQDNTL YAKAILSDEV VEAGLKEASV ISMGTEVSDL DLLHIRELCD  240
QVLSLAEYRA QLYDYLKSRM NTIAPNLTAL VGACLISHGG SLLNLSKQPE STVQILGAEK  300
ALFRALKTKH ATPKYGLIYH ASVVGQAAPK HKGKISRSLA AKPALAIRCD ALGDGQDSTM  360
GVENRVKLEA RLRNLEGRDI GRLSGSAKGK PKVEVYDKDK KKGSGGLITP AKVRLLPCFK  420
RFPQLAFVIM FEKLVKQSLL KTPTGDSENG VKEKEDKKKK KADDEEEAKT KEPSKKKSKK  480
KKSEVEPETV EPAKKEKRKR KHEEEEAEMP A*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5wyj_3E	7e-90	154	380	158	406	Nucleolar protein 58
5wyk_3E	7e-90	154	380	158	406	Nucleolar protein 58
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	451	460	KEKEDKKKKK
2	479	500	KKKSEVEPETVEPAKKEKRKRK

Functional Description ? help Back to Top
Source	Description
UniProt	Required for 60S ribosomal subunit biogenesis. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa13g034280.1

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	AF302490	0.0	AF302490.1 Arabidopsis thaliana NOP58-like protein F108 mRNA, complete cds.
GenBank	AY074281	0.0	AY074281.1 Arabidopsis thaliana putative SAR DNA-binding protein (At5g27120) mRNA, complete cds.
GenBank	AY096684	0.0	AY096684.1 Arabidopsis thaliana putative SAR DNA-binding protein (At5g27120) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010421655.1	1e-177	PREDICTED: probable nucleolar protein 5-1 isoform X1
Refseq	XP_010421656.1	1e-175	PREDICTED: probable nucleolar protein 5-1 isoform X2
Swissprot	O04658	1e-165	NOP5A_ARATH; Probable nucleolar protein 5-1
TrEMBL	R0GTV2	1e-168	R0GTV2_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_010421656.1	1e-175	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6395	14	42

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G27130.1	8e-61	AGAMOUS-like 39

Publications ? help Back to Top
Gruhler A,Schulze WX,Matthiesen R,Mann M,Jensen ON Stable isotope labeling of Arabidopsis thaliana cells and quantitative proteomics by mass spectrometry. Mol. Cell Proteomics, 2005. 4(11): p. 1697-709 [PMID:16088002] Kojima H, et al. Sugar-inducible expression of the nucleolin-1 gene of Arabidopsis thaliana and its role in ribosome synthesis, growth and development. Plant J., 2007. 49(6): p. 1053-63 [PMID:17286797]