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

Itr_sc000417.1_g00057.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

SBP

Protein Properties

Length: 336aa MW: 36683.9 Da PI: 8.8632

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000417.1_g00057.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	130.3	6.7e-41	26	102	2	78
-SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 C v+gC+adls+++eyhrrhkvCe hsk+p+v++ g+eqrfCqqCsrfh+l efDe krsCr+rL++hn+rrrk+q+ Itr_sc000417.1_g00057.1 26 CLVDGCNADLSRCREYHRRHKVCELHSKTPKVTIGGREQRFCQQCSRFHSLAEFDEVKRSCRKRLDGHNRRRRKPQP 102 **************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	2.7E-33	20	87	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	31.983	23	100	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	3.01E-38	24	105	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.6E-30	26	99	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0048653	Biological Process	anther development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 336 aa Download sequence Send to blast
MESSSSLSGS SKRAKAPGSV GQVAHCLVDG CNADLSRCRE YHRRHKVCEL HSKTPKVTIG 60 GREQRFCQQC SRFHSLAEFD EVKRSCRKRL DGHNRRRRKP QPESLSKSSG MLFSGQQGAK 120 LLSFSSSQIF PTSSVSSTWP GFSKPENDVV LYSNNQSQSH LNYIIDTQNS FPDSCAQFKG 180 VMNQFQFMQG SSEASSISQQ QQPLVDHNSA RGNCSQKLFA AAGLSSRIVD SDRALSLLSS 240 ASSSSVNREI GLSHVVQPEA IPHPLHYGGL ISHYPFVAHE IETKPAGVSA AAAADCHAIK 300 NAARLQFHNV IPNAPTTDVS SSGGPHQTHT FMWEQD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	7e-28	26	99	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	82	99	KRSCRKRLDGHNRRRRKP

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00555	DAP	Transfer from AT5G50570	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305\|PubMed:12202040}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	GU172038	1e-98	GU172038.1 Ipomoea batatas microsatellite Stv_Ipb_1841 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019180911.1	1e-165	PREDICTED: squamosa promoter-binding-like protein 13A isoform X2
Swissprot	B9DI20	7e-51	SP13A_ARATH; Squamosa promoter-binding-like protein 13A
Swissprot	P0DI11	7e-51	SP13B_ARATH; Squamosa promoter-binding-like protein 13B
TrEMBL	A0A125SZN9	1e-123	A0A125SZN9_TOBAC; Squamosa promoter binding protein NtabSPL13
TrEMBL	A0A314KI71	1e-123	A0A314KI71_NICAT; Squamosa promoter-binding-like protein 16
STRING	XP_009621034.1	1e-124	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA4920	20	37

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G50670.1	3e-47	SBP family protein

Publications ? help Back to Top
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] Xu M, et al. Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana. PLoS Genet., 2016. 12(8): p. e1006263 [PMID:27541584]