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

XP_009136975.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 291aa MW: 33498.9 Da PI: 9.6637

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009136975.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	97.7	4.7e-31	63	113	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien++nrqvtf+kRrng+lKKA+ELSvLCdaev +i+fss+g+lyeys+ XP_009136975.1 63 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVTLIVFSSRGRLYEYSN 113 79***********************************************95 PP
2	K-box	96.4	4.4e-32	132	230	5	100
K-box 5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkk...ekelqeenkaLrk 96 ++ ++e + +++qqe+akL+++i ++q+++R+l+Ge ++s+s keL++Le +L++s+++iRskKnell+++i+++qk+ e +l++en++Lr+ XP_009136975.1 132 NTGTVAEINGQYYQQESAKLRQQIISIQNSNRQLMGETIGSMSPKELRNLEGRLDRSINRIRSKKNELLFAEIDYMQKRsmqEVDLHSENQRLRA 226 334489999******************************************************************984446689******* PP K-box 97 klee 100 k++e XP_009136975.1 227 KIAE 230 *986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	33.067	55	115	IPR002100	Transcription factor, MADS-box
SMART	SM00432	1.1E-39	55	114	IPR002100	Transcription factor, MADS-box
CDD	cd00265	1.76E-44	56	129	No hit	No description
SuperFamily	SSF55455	1.31E-32	56	130	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	57	111	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.2E-32	57	77	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	6.0E-26	64	111	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.2E-32	77	92	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.2E-32	92	113	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	6.2E-25	141	228	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	14.98	141	234	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: 291 aa Download sequence Send to blast
MADLEPFSRT FVHAFLGFLF LIDQFCPKYS WFCSMSNMAY QMELGGDSSP QRKSAGRGKI 60 EIKRIENTTN RQVTFCKRRN GLLKKAYELS VLCDAEVTLI VFSSRGRLYE YSNNSVKGTI 120 ERYKKAISDN TNTGTVAEIN GQYYQQESAK LRQQIISIQN SNRQLMGETI GSMSPKELRN 180 LEGRLDRSIN RIRSKKNELL FAEIDYMQKR SMQEVDLHSE NQRLRAKIAE NERNNPSMNL 240 MPGGYEQTMQ PPQTQSQPFD SRNYFQVAAL QPNNHHYSSA GRQDQTALQL V

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	1e-18	56	123	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	1e-18	56	123	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	1e-18	56	123	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	1e-18	56	123	1	68	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1tqe_P	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
1tqe_Q	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
1tqe_R	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
1tqe_S	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
3mu6_A	9e-19	56	123	1	68	Myocyte-specific enhancer factor 2A
3mu6_B	9e-19	56	123	1	68	Myocyte-specific enhancer factor 2A
3mu6_C	9e-19	56	123	1	68	Myocyte-specific enhancer factor 2A
3mu6_D	9e-19	56	123	1	68	Myocyte-specific enhancer factor 2A
3p57_I	2e-18	56	123	1	68	Myocyte-specific enhancer factor 2A
3p57_J	2e-18	56	123	1	68	Myocyte-specific enhancer factor 2A
6c9l_A	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
6c9l_B	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
6c9l_C	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
6c9l_D	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
6c9l_E	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
6c9l_F	2e-18	56	123	2	69	Myocyte-specific enhancer factor 2B
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.15497	0.0	bud

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009136975.1

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KC984300	0.0	KC984300.2 Brassica oleracea var. viridis AG mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009136975.1	0.0	PREDICTED: floral homeotic protein AGAMOUS isoform X1
Swissprot	P17839	1e-167	AG_ARATH; Floral homeotic protein AGAMOUS
TrEMBL	M4D7V4	0.0	M4D7V4_BRARP; Uncharacterized protein
STRING	Bra012564.1-P	0.0	(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-146	MIKC_MADS family protein

Publications ? help Back to Top
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]