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

Csa05g008730.1

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

MIKC_MADS

Protein Properties

Length: 248aa MW: 28229.8 Da PI: 9.5508

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa05g008730.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	97.6	5.1e-31	25	74	1	50
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey+ Csa05g008730.1 25 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYA 74 79***********************************************8 PP
2	K-box	113.5	2.1e-37	96	189	7	100
K-box 7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100 s++ea+++++qqe++kL+++i+ +q+ +Rh+lGe+L+sL++keL++Le++Lek+++++RskK+e+l+++ie++qk+e elq++n++Lr+k+ e Csa05g008730.1 96 PSVTEANTQYYQQEASKLRRQIRDIQNLNRHILGESLGSLNFKELKNLESRLEKGISRVRSKKHEMLVAEIEYMQKREIELQNDNMYLRSKITE 189 45899**************************************************************************************976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	33.389	17	77	IPR002100	Transcription factor, MADS-box
SMART	SM00432	9.1E-40	17	76	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.96E-32	18	90	IPR002100	Transcription factor, MADS-box
CDD	cd00265	1.95E-43	18	91	No hit	No description
PROSITE pattern	PS00350	0	19	73	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-32	19	39	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	3.3E-26	26	73	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-32	39	54	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-32	54	75	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	2.6E-26	101	187	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	14.983	103	193	IPR002487	Transcription factor, K-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 248 aa Download sequence Send to blast
MEGGASSNDV AESSKKIGRG KIEIKRIENT TNRQVTFCKR RNGLLKKAYE LSVLCDAEVA 60 LVIFSTRGRL YEYANNSVRG TIERYKKACS DAVNPPSVTE ANTQYYQQEA SKLRRQIRDI 120 QNLNRHILGE SLGSLNFKEL KNLESRLEKG ISRVRSKKHE MLVAEIEYMQ KREIELQNDN 180 MYLRSKITER AGLQQQESGA IHQGTVYESG VTSSHHSEQY NRNYIPVNLL EPNQNSSNHD 240 QPPLQLV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	4e-20	18	85	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	4e-20	18	85	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	4e-20	18	85	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	4e-20	18	85	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1tqe_P	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
1tqe_Q	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
1tqe_R	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
1tqe_S	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
5f28_A	5e-20	17	85	1	69	MEF2C
5f28_B	5e-20	17	85	1	69	MEF2C
5f28_C	5e-20	17	85	1	69	MEF2C
5f28_D	5e-20	17	85	1	69	MEF2C
6byy_C	5e-20	17	85	1	69	MEF2 CHIMERA
6byy_D	5e-20	17	85	1	69	MEF2 CHIMERA
6c9l_A	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
6c9l_B	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
6c9l_C	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
6c9l_D	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
6c9l_E	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
6c9l_F	4e-20	17	85	1	69	Myocyte-specific enhancer factor 2B
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Interacts genetically with TT16/AGL32 in a partially antagonistic manner during flower development. Is essential for the coordination of cell divisions in ovule, seed coat development and endosperm formation (PubMed:27776173). {ECO:0000269\|PubMed:27776173}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa05g008730.1

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	EU551768	0.0	EU551768.1 Capsella bursa-pastoris SHATTERPROOF2-like protein (SHP2a) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010506126.1	0.0	PREDICTED: agamous-like MADS-box protein AGL5 isoform X2
Refseq	XP_010508522.1	0.0	PREDICTED: agamous-like MADS-box protein AGL5 isoform X2
Refseq	XP_010517828.1	0.0	PREDICTED: agamous-like MADS-box protein AGL5 isoform X2
Swissprot	P29385	1e-173	AGL5_ARATH; Agamous-like MADS-box protein AGL5
TrEMBL	C1IDX1	1e-172	C1IDX1_CAPBU; SCHATTERPROOF2-like protein
STRING	XP_010506124.1	1e-180	(Camelina sativa)
STRING	XP_010508520.1	1e-180	(Camelina sativa)
STRING	XP_010517826.1	1e-180	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3341	23	50

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G42830.1	1e-162	MIKC_MADS family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] Rathnakumar K, et al. Angiopoietin-2 mediates thrombin-induced monocyte adhesion and endothelial permeability. J. Thromb. Haemost., 2016. 14(8): p. 1655-67 [PMID:27241812] Balanzà V,Roig-Villanova I,Di Marzo M,Masiero S,Colombo L Seed abscission and fruit dehiscence required for seed dispersal rely on similar genetic networks. Development, 2016. 143(18): p. 3372-81 [PMID:27510967] Ehlers K, et al. The MADS Box Genes ABS, SHP1, and SHP2 Are Essential for the Coordination of Cell Divisions in Ovule and Seed Coat Development and for Endosperm Formation in Arabidopsis thaliana. PLoS ONE, 2016. 11(10): p. e0165075 [PMID:27776173] Sehra B,Franks RG Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development. Front Plant Sci, 2017. 8: p. 1712 [PMID:29085379] Ó'Maoiléidigh DS,Stewart D,Zheng B,Coupland G,Wellmer F Floral homeotic proteins modulate the genetic program for leaf development to suppress trichome formation in flowers. Development, 2018. [PMID:29361563]