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

Sof011504

Organism

Saccharum officinarum

Taxonomic ID

4547

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex

Family

SBP

Protein Properties

Length: 238aa MW: 25846 Da PI: 10.0796

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Sof#S17449591	PU_ref	Unigene	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	117.8	5.6e-37	147	223	2	78
-SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 CqvegC++dls+ak+y+r+hk+C vhskap+v+v+gle+rfCqqC rf+ l efD++kr CrrrL +hn+ rrk+qa Sof011504 147 CQVEGCKVDLSSAKDYNRKHKICVVHSKAPKVVVAGLERRFCQQCNRFYGLAEFDQNKRNCRRRLTHHNSPRRKPQA 223 **************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	1.9E-30	139	208	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.308	144	221	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	8.5E-36	145	226	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	2.0E-28	147	220	IPR004333	Transcription factor, SBP-box

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

Sequence ? help Back to Top
Protein Sequence Length: 238 aa Download sequence Send to blast
MVWDWEHLVP SVSNAVTRHG SANSSGGTLT SSSELGHGSS KSSISASIDS PSGVGNSLEF 60 NFAAVERHVK NTGTNGRVDG SGNSPSSMIA FSPGEPLISL KLGKRAYFEN VCGGQDAKVS 120 APSDVTSAAT VVKKTKVSQQ NAKNWYCQVE GCKVDLSSAK DYNRKHKICV VHSKAPKVVV 180 AGLERRFCQQ CNRFYGLAEF DQNKRNCRRR LTHHNSPRRK PQADTILFQL LTVSTNVY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	9e-26	147	220	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sof.11780	0.0	bud\| crown\| leaf\| meristem\| root\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young panicles. {ECO:0000269\|PubMed:16861571}.
Uniprot	TISSUE SPECIFICITY: Expressed in young panicles. {ECO:0000269\|PubMed:16861571}.

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May be involved in panicle development. {ECO:0000250}.
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May be involved in panicle development. {ECO:0000250}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs miR156b and miR156h. {ECO:0000305\|PubMed:16861571}.
UniProt	INDUCTION: Negatively regulated by microRNAs miR156b and miR156h. {ECO:0000305\|PubMed:16861571}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001149534.1	1e-142	SBP-transcription factor25
Refseq	NP_001352585.1	1e-142	SBP-transcription factor25
Refseq	XP_008643717.1	1e-142	squamosa promoter-binding-like protein 11 isoform X1
Refseq	XP_008643719.1	1e-142	squamosa promoter-binding-like protein 11 isoform X1
Refseq	XP_008643720.1	1e-142	squamosa promoter-binding-like protein 11 isoform X1
Swissprot	A2YGR5	1e-80	SPL12_ORYSI; Squamosa promoter-binding-like protein 12
Swissprot	Q5Z818	1e-80	SPL12_ORYSJ; Squamosa promoter-binding-like protein 12
TrEMBL	A0A059Q0F8	1e-142	A0A059Q0F8_9POAL; Uncharacterized protein
STRING	GRMZM2G414805_P05	1e-141	(Zea mays)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G43270.3	4e-45	squamosa promoter binding protein-like 2

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Liu Q, et al. The alteration in the architecture of a T-DNA insertion rice mutant osmtd1 is caused by up-regulation of MicroRNA156f. J Integr Plant Biol, 2015. 57(10): p. 819-29 [PMID:25677853]