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

Niben101Scf01310g04011.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

M-type_MADS

Protein Properties

Length: 160aa MW: 18211.9 Da PI: 9.9646

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf01310g04011.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	83.3	1.5e-26	10	56	2	48
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48 ri nk+nrqvtfskRr g+ KKA+E+SvLCdaeva+i+fs++gk++e Niben101Scf01310g04011.1 10 RIGNKINRQVTFSKRRGGLVKKAHEISVLCDAEVALIVFSHKGKIFE 56 899*****************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	4.8E-35	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	28.973	1	61	IPR002100	Transcription factor, MADS-box
CDD	cd00265	8.58E-33	2	56	No hit	No description
SuperFamily	SSF55455	3.4E-28	2	93	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-27	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	2.5E-23	10	56	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-27	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-27	38	59	IPR002100	Transcription factor, MADS-box

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: 160 aa Download sequence Send to blast
MGRGKVQLRR IGNKINRQVT FSKRRGGLVK KAHEISVLCD AEVALIVFSH KGKIFECRKT 60 GAWNMLNSRL KLISYKGTTT IQEENNILSK KIKEKDSTVE QQAKWHQQNQ VPNSASFLLQ 120 PHPCLNIGGN YQEEAEEARR NELDLNLDSL YPCHMGCFAT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	4e-18	1	66	1	66	MEF2C
5f28_B	4e-18	1	66	1	66	MEF2C
5f28_C	4e-18	1	66	1	66	MEF2C
5f28_D	4e-18	1	66	1	66	MEF2C
6byy_A	5e-18	1	66	1	66	MEF2 CHIMERA
6byy_B	5e-18	1	66	1	66	MEF2 CHIMERA
6byy_C	5e-18	1	66	1	66	MEF2 CHIMERA
6byy_D	5e-18	1	66	1	66	MEF2 CHIMERA
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Controls floral meristem identity. Is also required for normal development of sepals and petals. Is required for the transition of an influorescence meristem into a floral meristem. Interacts with LEAFY (By similarity). {ECO:0000250}.
UniProt	Transcription factor that promotes early floral meristem identity in synergy with LEAFY. Displays a redundant function with CAULIFLOWER in the up-regulation of LEAFY. Required subsequently for the transition of an inflorescence meristem into a floral meristem, and for the normal development of sepals and petals in flowers. Regulates positively B class homeotic proteins (By similarity). {ECO:0000250}.
UniProt	Transcription factor that promotes early floral meristem identity in synergy with LEAFY. Displays a redundant function with CAULIFLOWER in the up-regulation of LEAFY. Required subsequently for the transition of an inflorescence meristem into a floral meristem, and for the normal development of sepals and petals in flowers. Regulates positively B class homeotic proteins (By similarity). {ECO:0000250}.
UniProt	Transcription factor that promotes early floral meristem identity in synergy with LEAFY. Displays a redundant function with CAULIFLOWER in the up-regulation of LEAFY. Required subsequently for the transition of an inflorescence meristem into a floral meristem, and for the normal development of sepals and petals in flowers. Regulates positively B class homeotic proteins (By similarity). {ECO:0000250}.
UniProt	Transcription factor that promotes early floral meristem identity in synergy with LEAFY. Is required subsequently for the transition of an inflorescence meristem into a floral meristem. Is indispensable for normal development of sepals and petals in flowers. Regulates positively the B class homeotic proteins APETALA3 and PISTILLATA with the cooperation of LEAFY and UFO. Interacts with SEPALLATA3 or AP3/PI heterodimer to form complexes that could be involved in genes regulation during floral meristem development. Regulates positively AGAMOUS in cooperation with LEAFY. Displays a redundant function with CAULIFLOWER in the up-regulation of LEAFY. Together with AGL24 and SVP, controls the identity of the floral meristem and regulates expression of class B, C and E genes. Represses flowering time genes AGL24, SVP and SOC1 in emerging floral meristems. {ECO:0000269\|PubMed:11283333, ECO:0000269\|PubMed:17428825, ECO:0000269\|PubMed:17794879, ECO:0000269\|PubMed:19656343, ECO:0000269\|Ref.8}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by TFL1 and by the C class floral homeotic protein AGAMOUS. Positively regulated by CAULIFLOWER. {ECO:0000269\|PubMed:9783581}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007045796.2	1e-47	PREDICTED: truncated transcription factor CAULIFLOWER A isoform X1
Swissprot	A2IB53	2e-29	AP1_CITSI; Floral homeotic protein APETALA 1
Swissprot	D7KWY6	2e-29	AP1_ARALL; Floral homeotic protein APETALA 1
Swissprot	P0DI14	2e-29	AP1_BRARP; Floral homeotic protein APETALA 1
Swissprot	P35631	2e-29	AP1_ARATH; Floral homeotic protein APETALA 1
Swissprot	Q41276	2e-29	AP1_SINAL; Floral homeotic protein APETALA 1
TrEMBL	A0A2N9EUK0	3e-52	A0A2N9EUK0_FAGSY; Uncharacterized protein
STRING	Gorai.012G185500.1	2e-50	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA499	23	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G69120.1	6e-32	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] Furner I,Ellis L,Bakht S,Mirza B,Sheikh M CAUT lines: a novel resource for studies of cell autonomy in Arabidopsis. Plant J., 2008. 53(4): p. 645-60 [PMID:18269574] Hu TT, et al. The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nat. Genet., 2011. 43(5): p. 476-81 [PMID:21478890] Winterhagen P,Tiyayon P,Samach A,Hegele M,Wünsche JN Isolation and characterization of FLOWERING LOCUS T subforms and APETALA1 of the subtropical fruit tree Dimocarpus longan. Plant Physiol. Biochem., 2013. 71: p. 184-90 [PMID:23954797] Lei HJ, et al. Identification and characterization of FaSOC1, a homolog of SUPPRESSOR OF OVEREXPRESSION OF CONSTANS1 from strawberry. Gene, 2013. 531(2): p. 158-67 [PMID:24055423] Yu Y, et al. MlWRKY12, a novel Miscanthus transcription factor, participates in pith secondary cell wall formation and promotes flowering. Plant Sci., 2013. 212: p. 1-9 [PMID:24094048] Qian H, et al. The circadian clock gene regulatory module enantioselectively mediates imazethapyr-induced early flowering in Arabidopsis thaliana. J. Plant Physiol., 2014. 171(5): p. 92-8 [PMID:24484962] Maejima K, et al. Recognition of floral homeotic MADS domain transcription factors by a phytoplasmal effector, phyllogen, induces phyllody. Plant J., 2014. 78(4): p. 541-54 [PMID:24597566] Azeez A,Miskolczi P,Tylewicz S,Bhalerao RP A tree ortholog of APETALA1 mediates photoperiodic control of seasonal growth. Curr. Biol., 2014. 24(7): p. 717-24 [PMID:24656832] MacLean AM, et al. Phytoplasma effector SAP54 hijacks plant reproduction by degrading MADS-box proteins and promotes insect colonization in a RAD23-dependent manner. PLoS Biol., 2014. 12(4): p. e1001835 [PMID:24714165] Yamaguchi N, et al. Gibberellin acts positively then negatively to control onset of flower formation in Arabidopsis. Science, 2014. 344(6184): p. 638-41 [PMID:24812402] Ji H, et al. Downregulation of leaf flavin content induces early flowering and photoperiod gene expression in Arabidopsis. BMC Plant Biol., 2014. 14: p. 237 [PMID:25201173] Zheng T, et al. Overexpression of two PsnAP1 genes from Populus simonii × P. nigra causes early flowering in transgenic tobacco and Arabidopsis. PLoS ONE, 2014. 9(10): p. e111725 [PMID:25360739] Zhao S, et al. ZmSOC1, a MADS-box transcription factor from Zea mays, promotes flowering in Arabidopsis. Int J Mol Sci, 2014. 15(11): p. 19987-20003 [PMID:25372944] Li L, et al. Expression of turtle riboflavin-binding protein represses mitochondrial electron transport gene expression and promotes flowering in Arabidopsis. BMC Plant Biol., 2014. 14: p. 381 [PMID:25547226] Leal Valentim F, et al. A quantitative and dynamic model of the Arabidopsis flowering time gene regulatory network. PLoS ONE, 2015. 10(2): p. e0116973 [PMID:25719734] Thoma R,Chandler JW Polarity in the early floral meristem of Arabidopsis. Plant Signal Behav, 2015. 10(4): p. e992733 [PMID:25806573] Chen Z, et al. Overexpression of AtAP1M3 regulates flowering time and floral development in Arabidopsis and effects key flowering-related genes in poplar. Transgenic Res., 2015. 24(4): p. 705-15 [PMID:25820621] Ma X, et al. CYCLIN-DEPENDENT KINASE G2 regulates salinity stress response and salt mediated flowering in Arabidopsis thaliana. Plant Mol. Biol., 2015. 88(3): p. 287-99 [PMID:25948280] Sacharowski SP, et al. SWP73 Subunits of Arabidopsis SWI/SNF Chromatin Remodeling Complexes Play Distinct Roles in Leaf and Flower Development. Plant Cell, 2015. 27(7): p. 1889-906 [PMID:26106148] Minguet EG,Segard S,Charavay C,Parcy F MORPHEUS, a Webtool for Transcription Factor Binding Analysis Using Position Weight Matrices with Dependency. PLoS ONE, 2015. 10(8): p. e0135586 [PMID:26285209] Han Y,Jiao Y APETALA1 establishes determinate floral meristem through regulating cytokinins homeostasis in Arabidopsis. Plant Signal Behav, 2015. 10(11): p. e989039 [PMID:26359644] Andrés F, et al. Floral Induction in Arabidopsis by FLOWERING LOCUS T Requires Direct Repression of BLADE-ON-PETIOLE Genes by the Homeodomain Protein PENNYWISE. Plant Physiol., 2015. 169(3): p. 2187-99 [PMID:26417007] Xie W, et al. Exploring potential new floral organ morphogenesis genes of Arabidopsis thaliana using systems biology approach. Front Plant Sci, 2015. 6: p. 829 [PMID:26528302] Yu Y, et al. WRKY71 accelerates flowering via the direct activation of FLOWERING LOCUS T and LEAFY in Arabidopsis thaliana. Plant J., 2016. 85(1): p. 96-106 [PMID:26643131] McCarthy EW,Mohamed A,Litt A Functional Divergence of APETALA1 and FRUITFULL is due to Changes in both Regulation and Coding Sequence. Front Plant Sci, 2015. 6: p. 1076 [PMID:26697035] Saleh A,Alvarez-Venegas R,Liu N,Avramova Z Corrigendum to "Dynamic and stable histone H3 methylation patterns at the Arabidopsis FLC and AP1 loci" [Gene. 2008 Oct. 15; 423(1):43-47]. Gene, 2016. 585(2): p. 266-7 [PMID:27094816] Tang M,Tao YB,Xu ZF Ectopic expression of Jatropha curcas APETALA1 (JcAP1) caused early flowering in Arabidopsis, but not in Jatropha. PeerJ, 2016. 4: p. e1969 [PMID:27168978] Ye L,Wang B,Zhang W,Shan H,Kong H Gains and Losses of Cis-regulatory Elements Led to Divergence of the Arabidopsis APETALA1 and CAULIFLOWER Duplicate Genes in the Time, Space, and Level of Expression and Regulation of One Paralog by the Other. Plant Physiol., 2016. 171(2): p. 1055-69 [PMID:27208240] Hou CJ,Yang CH Comparative analysis of the pteridophyte Adiantum MFT ortholog reveals the specificity of combined FT/MFT C and N terminal interaction with FD for the regulation of the downstream gene AP1. Plant Mol. Biol., 2016. 91(4-5): p. 563-79 [PMID:27216814] Monniaux M, et al. Conservation vs divergence in LEAFY and APETALA1 functions between Arabidopsis thaliana and Cardamine hirsuta. New Phytol., 2017. 216(2): p. 549-561 [PMID:28098947] Goslin K, et al. Transcription Factor Interplay between LEAFY and APETALA1/CAULIFLOWER during Floral Initiation. Plant Physiol., 2017. 174(2): p. 1097-1109 [PMID:28385730] Sawettalake N,Bunnag S,Wang Y,Shen L,Yu H DOAP1 Promotes Flowering in the Orchid Dendrobium Chao Praya Smile. Front Plant Sci, 2017. 8: p. 400 [PMID:28386268] Kim D,Abdelaziz ME,Ntui VO,Guo X,Al-Babili S Colonization by the endophyte Piriformospora indica leads to early flowering in Arabidopsis thaliana likely by triggering gibberellin biosynthesis. Biochem. Biophys. Res. Commun., 2017. 490(4): p. 1162-1167 [PMID:28668394] Serrano-Mislata A, et al. Regulatory interplay between LEAFY, APETALA1/CAULIFLOWER and TERMINAL FLOWER1: New insights into an old relationship. Plant Signal Behav, 2017. 12(10): p. e1370164 [PMID:28873010] Zhang GZ, et al. Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis. Plant Cell Rep., 2017. 36(12): p. 1995-2006 [PMID:29027578] Shimada T, et al. The AP-1 Complex is Required for Proper Mucilage Formation in Arabidopsis Seeds. Plant Cell Physiol., 2018. 59(11): p. 2331-2338 [PMID:30099531] Monniaux M, et al. The role of APETALA1 in petal number robustness. Elife, 2019. [PMID:30334736] Menzel G,Apel K,Melzer S Isolation and analysis of SaMADS C, the APETALA 1 cDNA homolog from mustard. Plant Physiol., 1995. 108(2): p. 853-4 [PMID:7610185] Vijayraghavan U,Siddiqi I,Meyerowitz E Isolation of an 800 kb contiguous DNA fragment encompassing a 3.5-cM region of chromosome 1 in Arabidopsis using YAC clones. Genome, 1995. 38(4): p. 817-23 [PMID:7672612]