PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Dalbergieae; Arachis

Family

HB-other

Protein Properties

Length: 257aa MW: 29616.2 Da PI: 5.2884

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araip.U8UTV	genome	NCGR_PGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	14.1	8.3e-05	4	60	7	51
--HHHHHHHHHHHHH..SSS--HHHHHHHHHHC..........TS-HHHHHHHHHHH CS Homeobox 7 ftkeqleeLeelFek..nrypsaeereeLAkkl..........gLterqVkvWFqNr 51 f+ ++++eLe+ +++ ++ ++++ + A + +Lt +qV+ WFqN+ Araip.U8UTV 4 FSIDEVNELERIYKEmgEKSVDQNFCKSVAISFssssrragkaSLTWEQVRHWFQNK 60 7778889999999966688888888888888888888999998*************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16719	2.6E-36	107	234	IPR032001	SAWADEE domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006306	Biological Process	DNA methylation
GO:0006346	Biological Process	methylation-dependent chromatin silencing
GO:0031047	Biological Process	gene silencing by RNA
GO:0003682	Molecular Function	chromatin binding

Sequence ? help Back to Top
Protein Sequence Length: 257 aa Download sequence Send to blast
MDRFSIDEVN ELERIYKEMG EKSVDQNFCK SVAISFSSSS RRAGKASLTW EQVRHWFQNK 60 LKESETNVAS TTSSMNLYID LSEASVLRNG QKSSSNAKGK RAEDISELTF EARSSKDVAW 120 HDVASFLNYR VLSTGELEVR IRYAGFGKEQ DEWINVKEGV RERSIPLEPS ECHKVNDGDL 180 ILCFLEKDDY ALYVDARVVR VLRRLHGPTD CRCIFIVRYV HDKTEEGVSW NRLCCRPTQE 240 EHVPEEIPLN PLEDLWG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4iup_A	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iup_B	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_A	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_B	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iur_A	3e-52	106	239	2	135	SHH1 SAWADEE
4iur_B	3e-52	106	239	2	135	SHH1 SAWADEE
4iut_A	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iut_B	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_A	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_B	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_A	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_B	3e-52	106	239	2	135	SAWADEE HOMEODOMAIN HOMOLOG 1
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Functional Description ? help Back to Top
Source	Description
UniProt	Involved in RNA-directed DNA methylation (RdDM). Required for the silencing of some endogenous RdDM targets and accumulation of 24-nt siRNAs, but not for the production of Pol V-dependent transcripts. Functions in transcriptional silencing through both DNA methylation-dependent and -independent pathways. Required for both maintenance and de-novo DNA methylation. Plays a role in the recruitment of Pol IV to genomic regions associated with K9 methylated histone H3 that are targets for RdDM. {ECO:0000269\|PubMed:21811420, ECO:0000269\|PubMed:22064704, ECO:0000269\|PubMed:23636332, ECO:0000269\|PubMed:23637343}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araip.U8UTV

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_016176806.1	0.0	protein SAWADEE HOMEODOMAIN HOMOLOG 1 isoform X1
Refseq	XP_025677507.1	0.0	protein SAWADEE HOMEODOMAIN HOMOLOG 1
Swissprot	Q9XI47	2e-78	SHH1_ARATH; Protein SAWADEE HOMEODOMAIN HOMOLOG 1
TrEMBL	A0A444XCV0	0.0	A0A444XCV0_ARAHY; Uncharacterized protein
STRING	XP_004510301.1	1e-117	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2704	14	15

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G18380.1	3e-38	sequence-specific DNA binding transcription factors;sequence-specific DNA binding

Publications ? help Back to Top
Liu J, et al. An atypical component of RNA-directed DNA methylation machinery has both DNA methylation-dependent and -independent roles in locus-specific transcriptional gene silencing. Cell Res., 2011. 21(12): p. 1691-700 [PMID:22064704] Law JA, et al. Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1. Nature, 2013. 498(7454): p. 385-9 [PMID:23636332] Ma L, et al. Angiosperms Are Unique among Land Plant Lineages in the Occurrence of Key Genes in the RNA-Directed DNA Methylation (RdDM) Pathway. Genome Biol Evol, 2015. 7(9): p. 2648-62 [PMID:26338185] Wang F,Axtell MJ AGO4 is specifically required for heterochromatic siRNA accumulation at Pol V-dependent loci in Arabidopsis thaliana. Plant J., 2017. 90(1): p. 37-47 [PMID:28002617]