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

Cucsa.298390.6

Common Name

Csa_4G000700, LOC101218411

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

MYB_related

Protein Properties

Length: 325aa MW: 36187.2 Da PI: 8.1829

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.298390.6	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	35.1	3e-11	5	55	1	46
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46 +++WT eE+ l+ +v ++G g W+tI + R+ ++k++w++ Cucsa.298390.6 5 KQKWTSEEEAALKAGVVKHGAGKWRTILKDPEfssvlYLRSNVDLKDKWRN 55 79*********************************88*********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	10.594	1	58	IPR017930	Myb domain
SuperFamily	SSF46689	3.01E-15	2	70	IPR009057	Homeodomain-like
SMART	SM00717	4.1E-6	4	59	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	5.7E-13	5	56	IPR009057	Homeodomain-like
Pfam	PF00249	1.4E-7	5	55	IPR001005	SANT/Myb domain
CDD	cd11660	4.05E-18	6	56	No hit	No description
SMART	SM00526	6.2E-10	144	210	IPR005818	Linker histone H1/H5, domain H15
PROSITE profile	PS51504	22.497	147	215	IPR005818	Linker histone H1/H5, domain H15
SuperFamily	SSF46785	1.2E-14	147	220	IPR011991	Winged helix-turn-helix DNA-binding domain
Gene3D	G3DSA:1.10.10.10	1.8E-12	151	218	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF00538	2.5E-7	152	208	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:0006357	Biological Process	regulation of transcription from RNA polymerase II promoter
GO:0009651	Biological Process	response to salt stress
GO:0009723	Biological Process	response to ethylene
GO:0009733	Biological Process	response to auxin
GO:0009737	Biological Process	response to abscisic acid
GO:0009739	Biological Process	response to gibberellin
GO:0009751	Biological Process	response to salicylic acid
GO:0009753	Biological Process	response to jasmonic acid
GO:0046686	Biological Process	response to cadmium ion
GO:0000786	Cellular Component	nucleosome
GO:0005730	Cellular Component	nucleolus
GO:0003691	Molecular Function	double-stranded telomeric DNA binding
GO:0033613	Molecular Function	activating transcription factor binding
GO:0042803	Molecular Function	protein homodimerization activity
GO:0070491	Molecular Function	repressing transcription factor binding
GO:1990841	Molecular Function	promoter-specific chromatin binding

Sequence ? help Back to Top
Protein Sequence Length: 325 aa Download sequence Send to blast
MGAPKQKWTS EEEAALKAGV VKHGAGKWRT ILKDPEFSSV LYLRSNVDLK DKWRNMSVMA 60 NGWGSREKAR LALKRLHAPR KDENAVGPSV AAQSEDELAE AKSVSLSSDI KQITGPKRSN 120 VRKEEEEEEE EEEEKEVERI ERDARYDCHR LDNLIIEAIT TLREPGGSNK TKITSYIEDQ 180 YWAPPDFKRL LSSKLKFLTA SRKLVKVKRK YRLPSVAASE RRSSMLLLED QQKASVRADK 240 DDMCILAKAQ IDLELAKMRT MTSQEAAAAA ARAVAEAEAA IAEAEEAARE AEAAEADAEA 300 AQSFAEAAMK TLKGRNLPKM MIRV*

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

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00607	ChIP-seq	Transfer from AT1G49950	Download

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681874	1e-169	LN681874.1 Cucumis melo genomic scaffold, anchoredscaffold00031.
GenBank	LN713261	1e-169	LN713261.1 Cucumis melo genomic chromosome, chr_7.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011652912.1	0.0	PREDICTED: telomere repeat-binding factor 1 isoform X3
Swissprot	Q8VWK4	6e-96	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A0A0KV07	0.0	A0A0A0KV07_CUCSA; Uncharacterized protein
STRING	XP_004170732.1	0.0	(Cucumis sativus)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	3e-73	telomere repeat binding factor 1

Link Out ? help Back to Top
Phytozome	Cucsa.298390.6
Entrez Gene	101218411

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] Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] 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]