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

AHYPO_005410-RA

Organism

Amaranthus hypochondriacus

Taxonomic ID

28502

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Amaranthaceae; Amaranthus

Family

MYB_related

Protein Properties

Length: 245aa MW: 26618.1 Da PI: 5.4966

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AHYPO_005410-RA	genome	BYU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	33.6	9.3e-11	5	55	1	46
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46 +++W++eE+ l+ +v ++G+g W++Ia+ R+ ++ ++w++ AHYPO_005410-RA 5 KQKWSAEEEAALKAGVLKHGTGKWSAIAKDPAfgrilYLRSNVDIEDKWRN 55 79**************************999999988********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	11.227	1	61	IPR017930	Myb domain
SuperFamily	SSF46689	6.47E-15	2	69	IPR009057	Homeodomain-like
SMART	SM00717	5.7E-8	4	59	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.4E-13	4	56	IPR009057	Homeodomain-like
Pfam	PF00249	6.7E-9	5	56	IPR001005	SANT/Myb domain
CDD	cd11660	1.28E-16	6	57	No hit	No description
PROSITE profile	PS51504	18.301	111	186	IPR005818	Linker histone H1/H5, domain H15
SMART	SM00526	1.5E-6	115	180	IPR005818	Linker histone H1/H5, domain H15
SuperFamily	SSF46785	1.8E-11	116	178	IPR011991	Winged helix-turn-helix DNA-binding domain
Gene3D	G3DSA:1.10.10.10	1.3E-10	120	181	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF00538	3.5E-6	122	177	IPR005818	Linker histone H1/H5, domain H15

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006334	Biological Process	nucleosome assembly
GO:0000786	Cellular Component	nucleosome
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 245 aa Download sequence Send to blast
MGAPKQKWSA EEEAALKAGV LKHGTGKWSA IAKDPAFGRI LYLRSNVDIE DKWRNMNVMP 60 CGFETKEKSE VKHKRAPMQS TTVKQEENVS SASDVPQNEE MPDVKPPVQI STPPQRSIER 120 LDKLILEAVA NSKNPGGSNE TAIASYIEDR CWTPPDFKHV LSANLKYLMS SGKLVKIDEE 180 LAKMTSVTPE EAAAAASRAV AEAEAAIAEA EEASREADEA EAYAKAAQAF VDAATKIAKR 240 EKHP*

Functional Description ? help Back to Top
Source	Description
UniProt	Binds preferentially double-stranded telomeric repeats. {ECO:0000269\|PubMed:19102728}.

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_021724019.1	4e-86	telomere repeat-binding factor 1-like isoform X3
Swissprot	Q8VWK4	9e-60	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A0K9RDL1	7e-79	A0A0K9RDL1_SPIOL; Uncharacterized protein (Fragment)
STRING	XP_010672702.1	5e-84	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	3e-61	telomere repeat binding factor 1

Link Out ? help Back to Top
Phytozome	AHYPO_005410-RA

Publications ? help Back to Top
Alexandrov NN, et al. Features of Arabidopsis genes and genome discovered using full-length cDNAs. Plant Mol. Biol., 2006. 60(1): p. 69-85 [PMID:16463100] Schrumpfová PP, et al. Telomere repeat binding proteins are functional components of Arabidopsis telomeres and interact with telomerase. Plant J., 2014. 77(5): p. 770-81 [PMID:24397874] Liang SC, et al. Kicking against the PRCs - A Domesticated Transposase Antagonises Silencing Mediated by Polycomb Group Proteins and Is an Accessory Component of Polycomb Repressive Complex 2. PLoS Genet., 2015. 11(12): p. e1005660 [PMID:26642436] Fulcher N,Riha K Using Centromere Mediated Genome Elimination to Elucidate the Functional Redundancy of Candidate Telomere Binding Proteins in Arabidopsis thaliana. Front Genet, 2015. 6: p. 349 [PMID:26779251] Kotliński M, et al. Phylogeny-Based Systematization of Arabidopsis Proteins with Histone H1 Globular Domain. Plant Physiol., 2017. 174(1): p. 27-34 [PMID:28298478]