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

OMERI02G06420.1

Organism

Oryza meridionalis

Taxonomic ID

40149

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

SBP

Protein Properties

Length: 330aa MW: 35791 Da PI: 9.3862

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI02G06420.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	125.4	2.3e-39	71	148	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +CqvegC ++l +k+yhr+h+vCe+hsk p+v+v+g+e+rfCqqCsrfh+lsefD++krsCrrrL +hn+rrrk+q+ OMERI02G06420.1 71 RCQVEGCGVELVGVKDYHRKHRVCEAHSKFPHVVVAGQERRFCQQCSRFHALSEFDQKKRSCRRRLYDHNARRRKPQT 148 6**************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	3.3E-33	64	133	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	31.53	69	146	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	2.49E-38	70	152	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.3E-30	72	145	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: 330 aa Download sequence Send to blast
MDWMPPPKPT SPRSPPLLWD WADAAVPGSS SGEVSAAAAA AAHPGRRRKE KRGRAEEGGG 60 GGGGGGGGEV RCQVEGCGVE LVGVKDYHRK HRVCEAHSKF PHVVVAGQER RFCQQCSRFH 120 ALSEFDQKKR SCRRRLYDHN ARRRKPQTDV FSYASARPPS SLLFDDSRQI SFVWNKAPLN 180 HVRPFAISPW ESSSEVGATD GHIYLDKSHL SKSLPAFNTN IDELLRIKGP DASLTASKFD 240 GAPDLQRALS LLSSSSCGLP DPVQQASRVI QFTGTSQNNR ELPPLNGGNS ASASCANVQT 300 IAQPAQLVRF TMDASSNACQ SNFFGLNQIN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	5e-25	62	145	1	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	45	50	RRRKEK
2	127	144	KKRSCRRRLYDHNARRRK

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}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK061484	0.0	AK061484.1 Oryza sativa Japonica Group cDNA clone:006-308-H09, full insert sequence.
GenBank	AK066057	0.0	AK066057.1 Oryza sativa Japonica Group cDNA clone:J013053E16, full insert sequence.
GenBank	AK068702	0.0	AK068702.1 Oryza sativa Japonica Group cDNA clone:J013159I15, full insert sequence.
GenBank	HQ858810	0.0	HQ858810.1 Oryza sativa Japonica Group isolate UT1190 SBP transcription factor mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015623076.1	0.0	squamosa promoter-binding-like protein 4 isoform X2
Swissprot	Q6H509	1e-134	SPL4_ORYSJ; Squamosa promoter-binding-like protein 4
TrEMBL	A0A0E0CGF7	0.0	A0A0E0CGF7_9ORYZ; Uncharacterized protein
STRING	OMERI02G06360.1	0.0	(Oryza meridionalis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP6271	29	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G43270.3	4e-37	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]