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

GSBRNA2T00001530001

Common Name

GSBRNA2T00001530001, LOC106419682

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

MIKC_MADS

Protein Properties

Length: 250aa MW: 28318.9 Da PI: 9.9553

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00001530001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	99.8	1.1e-31	22	72	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+ GSBRNA2T00001530001 22 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 72 79***********************************************95 PP
2	K-box	107.3	1.8e-35	89	186	3	100
K-box 3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenk 92 +s++ s++e +a+++qqe+akL+++i ++q+++R+l+Ge ++s+s keL++Le +L++s+++iRskKnell+++i+++qk+e +l+++n+ GSBRNA2T00001530001 89 NSNTGSVAEINAQYYQQESAKLRQQIISIQNSNRQLMGETIGSMSPKELRNLEGRLDRSINRIRSKKNELLFAEIDYMQKREVDLHSDNQ 178 45555699******************************************************************************** PP K-box 93 aLrkklee 100 Lr+k++e GSBRNA2T00001530001 179 LLRAKIAE 186 ***986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	33.319	14	74	IPR002100	Transcription factor, MADS-box
SMART	SM00432	8.1E-41	14	73	IPR002100	Transcription factor, MADS-box
CDD	cd00265	3.20E-45	15	88	No hit	No description
SuperFamily	SSF55455	3.01E-33	15	87	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	6.6E-33	16	36	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	16	70	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	9.4E-27	23	70	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	6.6E-33	36	51	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	6.6E-33	51	72	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	5.2E-27	99	184	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	14.842	100	190	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:0048366	Biological Process	leaf development
GO:0048440	Biological Process	carpel development
GO:0048443	Biological Process	stamen development
GO:0048497	Biological Process	maintenance of floral organ identity
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: 250 aa Download sequence Send to blast
MELGGDSSPQ RKTAGRGKIE IKRIENTTNR QVTFCKRRNG LLKKAYELSV LCDAEVALIV 60 FSSRGRLYEY SNNSVKGTIE RYKKAISDNS NTGSVAEINA QYYQQESAKL RQQIISIQNS 120 NRQLMGETIG SMSPKELRNL EGRLDRSINR IRSKKNELLF AEIDYMQKRE VDLHSDNQLL 180 RAKIAENERN NPSMNLMPGG SNYEQIIPPP QTNSQPFDSR NYFQVAALQP NNQHYSSAGR 240 QDLTALQLV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	6e-20	15	82	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	6e-20	15	82	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	6e-20	15	82	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	6e-20	15	82	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
3kov_A	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3kov_B	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3kov_I	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3kov_J	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3mu6_A	5e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3mu6_B	5e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3mu6_C	5e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3mu6_D	5e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3p57_A	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3p57_B	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3p57_C	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3p57_D	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3p57_I	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
3p57_J	6e-20	15	82	1	68	Myocyte-specific enhancer factor 2A
6c9l_E	7e-20	15	82	2	69	Myocyte-specific enhancer factor 2B
6c9l_F	7e-20	15	82	2	69	Myocyte-specific enhancer factor 2B
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Detected early in the floral meristem but mostly expressed in stamen and carpel primordia. {ECO:0000269\|PubMed:1675158}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the control of organ identity during the early development of flowers. Is required for normal development of stamens and carpels in the wild-type flower. Plays a role in maintaining the determinacy of the floral meristem. Acts as C class cadastral protein by repressing the A class floral homeotic genes like APETALA1. Forms a heterodimer via the K-box domain with either SEPALATTA1/AGL2, SEPALATTA2/AGL4, SEPALLATA3/AGL9 or AGL6 that could be involved in genes regulation during floral meristem development. Controls AHL21/GIK, a multifunctional chromatin modifier in reproductive organ patterning and differentiation (PubMed:19956801). Induces microsporogenesis through the activation of SPL/NZZ (PubMed:15254538). {ECO:0000269\|PubMed:15254538, ECO:0000269\|PubMed:19956801}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00609	ChIP-seq	Transfer from AT4G18960	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00001530001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by the A class floral homeotic protein APETALA2 and by other repressors like LEUNIG, SEUSS, SAP or CURLY LEAF. Positively regulated by both LEAFY and APETALA1. Repressed by silencing mediated by polycomb group (PcG) protein complex containing EMF1 and EMF2. Up-regulated by HUA2. {ECO:0000269\|PubMed:10198637, ECO:0000269\|PubMed:11058164, ECO:0000269\|PubMed:1675158, ECO:0000269\|PubMed:17794879, ECO:0000269\|PubMed:18281509, ECO:0000269\|PubMed:19783648, ECO:0000269\|PubMed:9783581}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BNABAG1X	0.0	M99415.1 Brassica napus (BAG1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013626091.1	0.0	PREDICTED: floral homeotic protein AGAMOUS-like isoform X4
Refseq	XP_013626092.1	0.0	PREDICTED: floral homeotic protein AGAMOUS-like isoform X5
Refseq	XP_013626093.1	0.0	PREDICTED: floral homeotic protein AGAMOUS-like isoform X6
Refseq	XP_013715947.2	0.0	floral homeotic protein AGAMOUS-like isoform X3
Refseq	XP_022563503.1	0.0	floral homeotic protein AGAMOUS-like isoform X4
Swissprot	P17839	1e-172	AG_ARATH; Floral homeotic protein AGAMOUS
TrEMBL	A0A078F837	0.0	A0A078F837_BRANA; BnaC03g62970D protein
STRING	Bra012564.1-P	1e-171	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6181	22	37

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G18960.1	1e-161	MIKC_MADS family protein

Link Out ? help Back to Top
Entrez Gene	106419682

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Huang Z, et al. APETALA2 antagonizes the transcriptional activity of AGAMOUS in regulating floral stem cells in Arabidopsis thaliana. New Phytol., 2017. 215(3): p. 1197-1209 [PMID:27604611] Rong XF, et al. Type-B ARRs Control Carpel Regeneration Through Mediating AGAMOUS Expression in Arabidopsis. Plant Cell Physiol., 2018. 59(4): p. 756-764 [PMID:29186581] Uemura A, et al. Regulation of floral meristem activity through the interaction of AGAMOUS, SUPERMAN, and CLAVATA3 in Arabidopsis. Plant Reprod, 2018. 31(1): p. 89-105 [PMID:29218596]