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

Sof003455

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: 245aa MW: 28038.2 Da PI: 10.4985

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Sof#S17311545	PU_unref	Unigene	View CDS
PUT-157a-Saccharum_officinarum-109324	PU_ref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	130.2	7.5e-41	59	136	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +CqvegC dl+++k+yhr+h+vCe+h+k p v+v+g+e+rfCqqCsrfh+lsefD++krsCrrrL++hn+rrrk+q+ Sof003455 59 RCQVEGCGLDLTRVKDYHRKHRVCEAHTKYPRVIVAGQERRFCQQCSRFHALSEFDQKKRSCRRRLSDHNARRRKPQP 136 6**************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	3.2E-33	53	121	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.24	57	134	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.77E-39	58	139	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	3.3E-31	60	133	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: 245 aa Download sequence Send to blast
MEWTAPKPAS SPPLLWDWGD HAATGSGSSS GDAPTRRGGN EREAKRARGE DGGRGAEVRC 60 QVEGCGLDLT RVKDYHRKHR VCEAHTKYPR VIVAGQERRF CQQCSRFHAL SEFDQKKRSC 120 RRRLSDHNAR RRKPQPDAFT FASARLPSSL FDDRRQISFV WNKAPVSHVR PFTSPWDSSS 180 DLKLPHAKET REVSTKSGDN YCDKFNLDKS HMSRAIPTLN HGXKMSPWPN EKFPDMSFNW 240 VQKIR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	4e-26	49	133	1	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	115	132	KKRSCRRRLSDHNARRRK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sof.5873	0.0	crown\| inflorescence\| leaf\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in stems, leaf sheaths, and 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}.

Regulation -- Description ? help Back to Top
Source	Description
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	XP_002451633.1	1e-140	squamosa promoter-binding-like protein 4
Swissprot	Q6H509	1e-82	SPL4_ORYSJ; Squamosa promoter-binding-like protein 4
TrEMBL	C5XW64	1e-138	C5XW64_SORBI; Uncharacterized protein
STRING	Sb04g004940.1	1e-139	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G43270.3	2e-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]