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

snap_masked-scaffold02880-abinit-gene-0.12-mRNA-1

Organism

Castanea mollissima

Taxonomic ID

60419

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea

Family

M-type_MADS

Protein Properties

Length: 63aa MW: 7278.59 Da PI: 10.9435

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
snap_masked-scaffold02880-abinit-gene-0.12-mRNA-1	genome	THGP	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	88.1	4.9e-28	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 k+i+n++ rqvtfskRr g++KKA+ELS+LCdae+ +++fs tgkl+ey+s snap_masked-scaffold02880-abinit-gene-0.12-mRNA-1 9 KKIDNTTARQVTFSKRRRGLFKKAYELSTLCDAEIGLMVFSATGKLFEYAS 59 78***********************************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	29.758	1	61	IPR002100	Transcription factor, MADS-box
SMART	SM00432	4.9E-40	1	60	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	3.66E-28	2	61	IPR002100	Transcription factor, MADS-box
CDD	cd00265	1.26E-34	3	60	No hit	No description
PRINTS	PR00404	2.2E-28	3	23	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	5.2E-26	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.2E-28	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.2E-28	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: 63 aa Download sequence Send to blast
MTRRKIQIKK IDNTTARQVT FSKRRRGLFK KAYELSTLCD AEIGLMVFSA TGKLFEYASS 60 RCL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	2e-20	1	60	1	60	MEF2C
5f28_B	2e-20	1	60	1	60	MEF2C
5f28_C	2e-20	1	60	1	60	MEF2C
5f28_D	2e-20	1	60	1	60	MEF2C
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Functional Description ? help Back to Top
Source	Description
UniProt	Putative transcription factor that coordinates gene expression underlying the differentiation of the pedicel abscission zone. May also be involved in the maintenance of the inflorescence meristem state.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023887353.1	6e-35	MADS-box protein JOINTLESS-like
Swissprot	Q9FUY6	5e-28	JOIN_SOLLC; MADS-box protein JOINTLESS
TrEMBL	B9S9I4	4e-33	B9S9I4_RICCO; Mads box protein, putative
STRING	cassava4.1_020641m	4e-34	(Manihot esculenta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF119	33	360

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G24540.1	4e-30	AGAMOUS-like 24

Publications ? help Back to Top
Nakano T,Kato H,Shima Y,Ito Y Apple SVP Family MADS-Box Proteins and the Tomato Pedicel Abscission Zone Regulator JOINTLESS have Similar Molecular Activities. Plant Cell Physiol., 2015. 56(6): p. 1097-106 [PMID:25746985]