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

gw1.2.830.1

Common Name

COCSUDRAFT_10804

Organism

Coccomyxa subellipsoidea C-169

Taxonomic ID

574566

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Trebouxiophyceae; Trebouxiophyceae incertae sedis; Coccomyxaceae; Coccomyxa; Coccomyxa subellipsoidea

Family

AP2

Protein Properties

Length: 151aa MW: 17125.4 Da PI: 10.1176

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gw1.2.830.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	48.9	1.6e-15	2	51	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV+++++++rW+A+I+d +k+++lg f+ +e A ka++ +++k +g gw1.2.830.1 2 SKYRGVTRHRRTKRWEAHIWDD-----KKQVYLGGFDVEEHAGKAHDVMALKCRG 51 89*****************4.....5*********************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54171	1.37E-14	2	60	IPR016177	DNA-binding domain
Pfam	PF00847	1.8E-10	2	51	IPR001471	AP2/ERF domain
CDD	cd00018	9.99E-18	2	59	No hit	No description
Gene3D	G3DSA:3.30.730.10	6.7E-16	3	60	IPR001471	AP2/ERF domain
SMART	SM00380	2.4E-21	3	65	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	16.423	3	59	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	2.22E-6	94	143	IPR016177	DNA-binding domain
Gene3D	G3DSA:3.30.730.10	2.9E-4	95	140	IPR001471	AP2/ERF domain
SMART	SM00380	0.014	95	151	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	9.756	95	151	IPR001471	AP2/ERF domain

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

Sequence ? help Back to Top
Protein Sequence Length: 151 aa Download sequence Send to blast
SSKYRGVTRH RRTKRWEAHI WDDKKQVYLG GFDVEEHAGK AHDVMALKCR GPNSPLNFAQ 60 EEYDELLPML PSLTKDEVVL LLRRQSKGFA KGTSKYRGVV KQRSGKWDGR MGQYPKRKYM 120 YVGVYGGIDE GAAAYERTAG ESNSGHSVSN L

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor (PubMed:22408071). Involved in spikelet transition and development (Probable) (PubMed:22408071). Prevents lemma and palea elongation as well as grain growth (PubMed:28066457, PubMed:22408071). Required for seed shattering through specifying abscission zone (AZ) development (PubMed:22408071). {ECO:0000269\|PubMed:22408071, ECO:0000269\|PubMed:28066457, ECO:0000305\|PubMed:26631749}.
UniProt	Transcription factor (PubMed:22408071). Involved in spikelet transition and development (PubMed:22408071). Prevents lemma and palea elongation as well as grain growth (PubMed:22408071). Required for seed shattering through specifying abscission zone (AZ) development (PubMed:22408071). {ECO:0000269\|PubMed:22408071}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Target of miR172 microRNA mediated cleavage, particularly during floral organ development (Probable). Induced by SH5 in spikelets abscission zones (AZ). Triggered by cold stress (PubMed:24923192). {ECO:0000269\|PubMed:24923192, ECO:0000305\|PubMed:26631749, ECO:0000305\|PubMed:28066457}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_005651430.1	1e-110	AP2-domain-containing protein, partial
Swissprot	A0A0N7KJT8	7e-42	APL25_ORYSJ; APETALA2-like protein 5
Swissprot	B8AVJ9	7e-42	APL25_ORYSI; APETALA2-like protein 5
TrEMBL	I0Z8B7	1e-108	I0Z8B7_COCSC; AP2-domain-containing protein (Fragment)
STRING	XP_005651430.1	1e-109	(Coccomyxa subellipsoidea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Chlorophytae	OGCP56	16	57

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36920.2	1e-43	AP2 family protein

Link Out ? help Back to Top
Entrez Gene	17044895

Publications ? help Back to Top
Zhou Y, et al. Genetic control of seed shattering in rice by the APETALA2 transcription factor shattering abortion1. Plant Cell, 2012. 24(3): p. 1034-48 [PMID:22408071] Blanc G, et al. The genome of the polar eukaryotic microalga Coccomyxa subellipsoidea reveals traits of cold adaptation. Genome Biol., 2012. 13(5): p. R39 [PMID:22630137] Yoon J, et al. The BEL1-type homeobox gene SH5 induces seed shattering by enhancing abscission-zone development and inhibiting lignin biosynthesis. Plant J., 2014. 79(5): p. 717-28 [PMID:24923192] Wang L, et al. Coordinated regulation of vegetative and reproductive branching in rice. Proc. Natl. Acad. Sci. U.S.A., 2015. 112(50): p. 15504-9 [PMID:26631749] Dai Z,Wang J,Zhu M,Miao X,Shi Z OsMADS1 Represses microRNA172 in Elongation of Palea/Lemma Development in Rice. Front Plant Sci, 2016. 7: p. 1891 [PMID:28066457]