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.192470.1

Common Name

Csa_3G664550, LOC101203103

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

SBP

Protein Properties

Length: 1014aa MW: 111377 Da PI: 6.113

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.192470.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	132	2.1e-41	155	232	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cqve+C adls+ak+yhrrhkvCe+hska+++lv++++qrfCqqCsrfh l+efDe+krsCrrrLa+hn+rrrk ++ Cucsa.192470.1 155 VCQVEDCGADLSNAKDYHRRHKVCETHSKASNALVANVMQRFCQQCSRFHVLQEFDEGKRSCRRRLAGHNKRRRKINP 232 6**************************************************************************875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	1.0E-33	149	217	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.017	153	230	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	3.4E-38	154	235	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	4.5E-30	156	229	IPR004333	Transcription factor, SBP-box
Gene3D	G3DSA:1.25.40.20	6.7E-8	311	338	IPR020683	Ankyrin repeat-containing domain
SuperFamily	SSF48403	4.31E-8	779	895	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	6.7E-8	785	898	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	2.47E-6	785	913	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0016021	Cellular Component	integral component of membrane
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1014 aa Download sequence Send to blast
MEAGYGGEAC QLYGMGTMDL RAAVGKRNLE WDLNDWKWDG DLFIARPLNT VESGHLSRQL 60 FPIVSGIPLT NGGSSNSSSS CSDEANMGIE KGKREVEKRR RVTVIEDENL NDEARTLSLK 120 VGGNGSQIVE RDAGSWEGTS GKKTKLAGGN SNRAVCQVED CGADLSNAKD YHRRHKVCET 180 HSKASNALVA NVMQRFCQQC SRFHVLQEFD EGKRSCRRRL AGHNKRRRKI NPDNVVNGNS 240 PPDEQTSSYL LLTLLRILAN LHSNGSNQTT DQDLLSHLIR SLACQSSEHG GKNLSGILHE 300 PQNLLNNGAL IGKSDLVSTF LSNGPQVPLR SSKQHDTPIP ETPAQAIGRG GDTPAISSIK 360 PSTSNSPPAY SEIRDSTVGQ CKMMNFDLND AYVDSDDGME DIERQTLPVH MGTSSLECPS 420 WVQQDSHQSS PPQTSGNSDS ASAQSPSSST GEAQSRTDRI ILKLFGKAPN DFPHVLRAQV 480 LDWLSHSPTE IESYIRPGCV VLTVYVRQTE AAWDNLCHDL STSFNRLLDV SDDAFWKTGW 540 VYVRVQHQIA FVYQGQVVVD TSLPLRNNNY CRITSVNPVA VSTSKKAIFS VKGINLSQPT 600 TRLLCAIEGK YLSQEASDES TESDDNLKAQ DDSQCVTFSC SIPVVYGRGF IEVEDDGFSS 660 SSFPFIVAEE DVCSEICSLQ SALELTETCS NSGETAELEG RSNAMEFIHE IGWLFHRNQL 720 KSRLGHLDPN ENLFSLPRFK WLMEFSMDHD WCAVVKKLLD ILRDGTVDAG GHPSLNLALM 780 EMGLLHRAVR KNSRSLVELL LRYPSKVKDA SSSEDSASVD GETDSFLFKP NVVGPAGLTP 840 LHIAAGKDDS EDVLDALTND PGMVGIEAWK SARDSTGSTP EDYARLRGHY SYIRLVQRKI 900 NKRSAAGHVV LDIPSSLSDG SWNQKQNTDF TSSRFEIGRT ELKPSQQHCK LCVRKPLGCG 960 TSSSASLVYR PAMLSMVAIA AVCVCVALLF KSSPEVLYVF RPFRWELLDY GTS*

Sequence ? help Back to Top

Protein Sequence Length: 1014 aa Download sequence Send to blast

MEAGYGGEAC QLYGMGTMDL RAAVGKRNLE WDLNDWKWDG DLFIARPLNT VESGHLSRQL  60
FPIVSGIPLT NGGSSNSSSS CSDEANMGIE KGKREVEKRR RVTVIEDENL NDEARTLSLK  120
VGGNGSQIVE RDAGSWEGTS GKKTKLAGGN SNRAVCQVED CGADLSNAKD YHRRHKVCET  180
HSKASNALVA NVMQRFCQQC SRFHVLQEFD EGKRSCRRRL AGHNKRRRKI NPDNVVNGNS  240
PPDEQTSSYL LLTLLRILAN LHSNGSNQTT DQDLLSHLIR SLACQSSEHG GKNLSGILHE  300
PQNLLNNGAL IGKSDLVSTF LSNGPQVPLR SSKQHDTPIP ETPAQAIGRG GDTPAISSIK  360
PSTSNSPPAY SEIRDSTVGQ CKMMNFDLND AYVDSDDGME DIERQTLPVH MGTSSLECPS  420
WVQQDSHQSS PPQTSGNSDS ASAQSPSSST GEAQSRTDRI ILKLFGKAPN DFPHVLRAQV  480
LDWLSHSPTE IESYIRPGCV VLTVYVRQTE AAWDNLCHDL STSFNRLLDV SDDAFWKTGW  540
VYVRVQHQIA FVYQGQVVVD TSLPLRNNNY CRITSVNPVA VSTSKKAIFS VKGINLSQPT  600
TRLLCAIEGK YLSQEASDES TESDDNLKAQ DDSQCVTFSC SIPVVYGRGF IEVEDDGFSS  660
SSFPFIVAEE DVCSEICSLQ SALELTETCS NSGETAELEG RSNAMEFIHE IGWLFHRNQL  720
KSRLGHLDPN ENLFSLPRFK WLMEFSMDHD WCAVVKKLLD ILRDGTVDAG GHPSLNLALM  780
EMGLLHRAVR KNSRSLVELL LRYPSKVKDA SSSEDSASVD GETDSFLFKP NVVGPAGLTP  840
LHIAAGKDDS EDVLDALTND PGMVGIEAWK SARDSTGSTP EDYARLRGHY SYIRLVQRKI  900
NKRSAAGHVV LDIPSSLSDG SWNQKQNTDF TSSRFEIGRT ELKPSQQHCK LCVRKPLGCG  960
TSSSASLVYR PAMLSMVAIA AVCVCVALLF KSSPEVLYVF RPFRWELLDY GTS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	9e-32	149	229	4	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	97	101	KRRRV

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000269\|PubMed:16554053}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00633	PBM	Transfer from PK06791.1	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	LN681827	0.0	LN681827.1 Cucumis melo genomic scaffold, anchoredscaffold00018.
GenBank	LN713258	0.0	LN713258.1 Cucumis melo genomic chromosome, chr_4.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004148578.1	0.0	PREDICTED: squamosa promoter-binding-like protein 1
Swissprot	Q9S7P5	0.0	SPL12_ARATH; Squamosa promoter-binding-like protein 12
TrEMBL	A0A0A0LEQ2	0.0	A0A0A0LEQ2_CUCSA; Uncharacterized protein
STRING	XP_008447446.1	0.0	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1539	34	95

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G60030.1	0.0	squamosa promoter-binding protein-like 12

Link Out ? help Back to Top
Phytozome	Cucsa.192470.1
Entrez Gene	101203103

Publications ? help Back to Top
Jung S, et al. Synteny conservation between the Prunus genome and both the present and ancestral Arabidopsis genomes. BMC Genomics, 2006. 7: p. 81 [PMID:16615871] 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] Jorgensen SA,Preston JC Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis. Mol. Phylogenet. Evol., 2014. 73: p. 129-39 [PMID:24508602] Chao LM, et al. Arabidopsis Transcription Factors SPL1 and SPL12 Confer Plant Thermotolerance at Reproductive Stage. Mol Plant, 2017. 10(5): p. 735-748 [PMID:28400323]