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

Cotton_A_29771_BGI-A2_v1.0

Organism

Gossypium arboreum

Taxonomic ID

29729

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

M-type_MADS

Protein Properties

Length: 86aa MW: 9802.52 Da PI: 10.7016

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cotton_A_29771_BGI-A2_v1.0	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	84.9	4.8e-27	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien++ rqvtfskR++g+lKK +ELSvLCda++ +iifsstgk+ y++ Cotton_A_29771_BGI-A2_v1.0 9 KRIENQTTRQVTFSKRQAGLLKKTHELSVLCDAKIGLIIFSSTGKMCQYCT 59 79***********************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	29.114	1	61	IPR002100	Transcription factor, MADS-box
SMART	SM00432	9.2E-37	1	60	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	2.49E-27	2	63	IPR002100	Transcription factor, MADS-box
CDD	cd00265	1.71E-35	2	59	No hit	No description
PRINTS	PR00404	3.2E-27	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.7E-23	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.2E-27	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.2E-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: 86 aa Download sequence Send to blast
MGRGKIAIKR IENQTTRQVT FSKRQAGLLK KTHELSVLCD AKIGLIIFSS TGKMCQYCTQ 60 PYRSLSPPLP LFFSSFHHSY IWPKNA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	2e-19	1	59	1	59	MEF2C
5f28_B	2e-19	1	59	1	59	MEF2C
5f28_C	2e-19	1	59	1	59	MEF2C
5f28_D	2e-19	1	59	1	59	MEF2C
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HM236441	3e-86	HM236441.1 UNVERIFIED: Gossypium hirsutum MADS25-like mRNA, complete sequence.
GenBank	HM236442	3e-86	HM236442.1 UNVERIFIED: Gossypium hirsutum MADS26-like mRNA, complete sequence.
GenBank	HM236444	3e-86	HM236444.1 Gossypium hirsutum MADS28 mRNA, complete cds.
GenBank	KC155652	3e-86	KC155652.1 Gossypium hirsutum MADS box protein MADS57 mRNA, complete cds.
GenBank	KC155661	3e-86	KC155661.1 Gossypium hirsutum MADS box protein MADS66 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016703859.1	4e-38	PREDICTED: protein TRANSPARENT TESTA 16-like isoform X3
Swissprot	Q9ATE5	5e-31	FBP24_PETHY; MADS-box protein FBP24
TrEMBL	A0A1U8KT28	1e-36	A0A1U8KT28_GOSHI; protein TRANSPARENT TESTA 16-like isoform X3
STRING	Gorai.013G069000.1	3e-37	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM78	28	413

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G23260.3	2e-28	MIKC_MADS family protein

Publications ? help Back to Top
Tonaco IA,Borst JW,de Vries SC,Angenent GC,Immink RG In vivo imaging of MADS-box transcription factor interactions. J. Exp. Bot., 2006. 57(1): p. 33-42 [PMID:16291798]