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

evm.model.supercontig_64.126

Organism

Carica papaya

Taxonomic ID

3649

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica

Family

MYB_related

Protein Properties

Length: 210aa MW: 22585.1 Da PI: 4.3316

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm.model.supercontig_64.126	genome	ASGPB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	34	6.8e-11	60	101	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 +W+ +E +ll++a + + + W+ Ia ++g ++ qc+++++ evm.model.supercontig_64.126 60 SWSDQETLLLLEAMEIYNEN-WNDIADHVG-SKSKAQCILHFLR 101 7**************988.*****.********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51293	21.33	56	107	IPR017884	SANT domain
SMART	SM00717	4.8E-10	57	105	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	1.79E-12	58	109	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	2.3E-7	58	99	IPR009057	Homeodomain-like
CDD	cd00167	3.75E-9	60	102	No hit	No description
Pfam	PF00249	1.8E-10	60	102	IPR001005	SANT/Myb domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 210 aa Download sequence Send to blast
MEGTMNKDMS EKVLGVRQFT VDILLCSDCF HEGRNVTGHS SIDFVKVDST KDYGDLDGES 60 WSDQETLLLL EAMEIYNENW NDIADHVGSK SKAQCILHFL RLPMEDGLLE NIEVPSKSKS 120 LSSSNRDDCR GLDANSNGDL PESCVQRTES EVRLPFENSA NPVMALVAFL ASAVGPRVAA 180 ACAHASLAAL SEGDGLATSG QEGSGRSNR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2yus_A	2e-11	51	111	11	71	SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily C member 1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Component of a multiprotein complex equivalent of the SWI/SNF complex, an ATP-dependent chromatin-remodeling complex, which is required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors. {ECO:0000269\|PubMed:14682613, ECO:0000269\|PubMed:16055636}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	evm.model.supercontig_64.126

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_021896386.1	1e-131	LOW QUALITY PROTEIN: SWI/SNF complex subunit SWI3C
Swissprot	Q9XI07	1e-76	SWI3C_ARATH; SWI/SNF complex subunit SWI3C
TrEMBL	B9H7H8	3e-89	B9H7H8_POPTR; Uncharacterized protein
STRING	evm.model.supercontig_64.126	1e-153	(Carica papaya)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6464	2	2
Representative plant	OGRP3305	2	2

Link Out ? help Back to Top
Phytozome	evm.model.supercontig_64.126

Publications ? help Back to Top
Sarnowski TJ,Swiezewski S,Pawlikowska K,Kaczanowski S,Jerzmanowski A AtSWI3B, an Arabidopsis homolog of SWI3, a core subunit of yeast Swi/Snf chromatin remodeling complex, interacts with FCA, a regulator of flowering time. Nucleic Acids Res., 2002. 30(15): p. 3412-21 [PMID:12140326] Zhou C,Miki B,Wu K CHB2, a member of the SWI3 gene family, is a global regulator in Arabidopsis. Plant Mol. Biol., 2003. 52(6): p. 1125-34 [PMID:14682613] Sarnowski TJ, et al. SWI3 subunits of putative SWI/SNF chromatin-remodeling complexes play distinct roles during Arabidopsis development. Plant Cell, 2005. 17(9): p. 2454-72 [PMID:16055636] Archacki R, et al. Genetic analysis of functional redundancy of BRM ATPase and ATSWI3C subunits of Arabidopsis SWI/SNF chromatin remodelling complexes. Planta, 2009. 229(6): p. 1281-92 [PMID:19301030] Vercruyssen L, et al. ANGUSTIFOLIA3 binds to SWI/SNF chromatin remodeling complexes to regulate transcription during Arabidopsis leaf development. Plant Cell, 2014. 26(1): p. 210-29 [PMID:24443518] Liu ZW, et al. Two Components of the RNA-Directed DNA Methylation Pathway Associate with MORC6 and Silence Loci Targeted by MORC6 in Arabidopsis. PLoS Genet., 2016. 12(5): p. e1006026 [PMID:27171427]