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

Sopim01g060310.0.1

Organism

Solanum pimpinellifolium

Taxonomic ID

4084

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

M-type_MADS

Protein Properties

Length: 140aa MW: 15117.5 Da PI: 8.9865

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopim01g060310.0.1	genome	CSHL	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	74.4	9.4e-24	14	59	2	47
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEE CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgkly 47 +i+n++n qvtfskRr+g++KKA+ELS+LC+a+va++ fs+++k+y Sopim01g060310.0.1 14 KIQNQTNLQVTFSKRRAGLFKKASELSTLCGANVAIVSFSPSNKVY 59 79******************************************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	24.376	5	65	IPR002100	Transcription factor, MADS-box
SMART	SM00432	1.3E-31	5	64	IPR002100	Transcription factor, MADS-box
CDD	cd00265	8.30E-34	6	73	No hit	No description
SuperFamily	SSF55455	5.23E-27	6	78	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.3E-19	7	27	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	2.4E-24	14	59	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.3E-19	27	42	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.3E-19	42	63	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: 140 aa Download sequence Send to blast
MRKPNGRKKI EIAKIQNQTN LQVTFSKRRA GLFKKASELS TLCGANVAIV SFSPSNKVYA 60 CGHPSVESIV DKFIGENTPP ETDDLNPIIV MGLSFLETDY HLGPTTELAQ VCVPAARQMS 120 GARSIIVVSQ CVLERLIAT*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	1e-17	6	82	1	77	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	1e-17	6	82	1	77	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	1e-17	6	82	1	77	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	1e-17	6	82	1	77	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
3kov_A	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3kov_B	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3kov_I	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3kov_J	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3p57_A	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3p57_B	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3p57_C	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3p57_D	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3p57_I	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
3p57_J	2e-17	6	82	1	77	Myocyte-specific enhancer factor 2A
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269\|PubMed:18334668}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC240193	1e-149	AC240193.5 Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-152e17 map 1, complete sequence.
GenBank	HG975513	1e-149	HG975513.1 Solanum lycopersicum chromosome ch01, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004229069.1	4e-60	agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	2e-30	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A3Q7EFF6	2e-59	A0A3Q7EFF6_SOLLC; Uncharacterized protein
STRING	Solyc01g060310.1.1	3e-99	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA18460	2	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	7e-33	AGAMOUS-like 62

Publications ? help Back to Top
Xu W, et al. Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds. Plant Cell, 2016. 28(6): p. 1343-60 [PMID:27233529] Figueiredo DD,Batista RA,Roszak PJ,Köhler C Auxin production couples endosperm development to fertilization. Nat Plants, 2015. 1: p. 15184 [PMID:27251719] Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C Auxin production in the endosperm drives seed coat development in Arabidopsis. Elife, 2017. [PMID:27848912] Fiume E,Coen O,Xu W,Lepiniec L,Magnani E Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal. Plant Signal Behav, 2017. 12(8): p. e1339000 [PMID:28613109] Zhang S, et al. FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development. Plant Physiol., 2018. 177(1): p. 285-299 [PMID:29523711]