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

OB08G28320.1

Organism

Oryza brachyantha

Taxonomic ID

4533

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: 314aa MW: 34543.7 Da PI: 9.9958

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OB08G28320.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	67.3	3e-21	2	39	41	78
EE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 41 rfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 rfCqqCsrfh l efDe+krsCr+rL++hn+rrrk+q+ OB08G28320.1 2 RFCQQCSRFHLLAEFDETKRSCRKRLDGHNRRRRKPQP 39 9**********************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	1.8E-10	1	24	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	19.255	1	37	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	5.9E-14	1	36	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	9.42E-19	2	42	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: 314 aa Download sequence Send to blast
MRFCQQCSRF HLLAEFDETK RSCRKRLDGH NRRRRKPQPD PMSNAGYIAS PQGARFSPFV 60 TPRPEASWTG MMKTEESPYY THHHQIPLGI SSSRQQHFVG STSDGGRRFP FLQEGEISFG 120 AGAGCVPMDA AAAAPVGQPL LKTVAPPPPH HHHQQHHDGG RSSSSGASKM FSDGLTQVLD 180 SDCALSLLSA PANSSAIDVG GRMVVQPTEH IPMAQPLISG LQFGGGGGGS XXXXXXXXXX 240 XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX XXXXXAPSSS 300 RRPASPARWW RVSS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	2e-12	2	36	50	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	19	36	KRSCRKRLDGHNRRRRKP

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	OB08G28320.1

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	AK109469	1e-129	AK109469.1 Oryza sativa Japonica Group cDNA clone:001-128-D02, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015695681.1	1e-167	PREDICTED: squamosa promoter-binding-like protein 16
Swissprot	Q6YZE8	1e-110	SPL16_ORYSJ; Squamosa promoter-binding-like protein 16
TrEMBL	J3MUQ1	1e-165	J3MUQ1_ORYBR; Uncharacterized protein
STRING	OB08G28320.1	1e-166	(Oryza brachyantha)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1755	37	95

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G50670.1	3e-20	SBP family protein

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] Wang SS,Wang CS,Tseng TH,Hou YL,Chen KY High-resolution genetic mapping and candidate gene identification of the SLP1 locus that controls glume development in rice. Theor. Appl. Genet., 2011. 122(8): p. 1489-96 [PMID:21327937] Wang S, et al. Control of grain size, shape and quality by OsSPL16 in rice. Nat. Genet., 2012. 44(8): p. 950-4 [PMID:22729225] Wang S, et al. The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and grain quality. Nat. Genet., 2015. 47(8): p. 949-54 [PMID:26147620] Wang Y, et al. A comprehensive meta-analysis of plant morphology, yield, stay-green, and virus disease resistance QTL in maize (Zea mays L.). Planta, 2016. 243(2): p. 459-71 [PMID:26474992] Lee CM, et al. Influence of Multi-Gene Allele Combinations on Grain Size of Rice and Development of a Regression Equation Model to Predict Grain Parameters. Rice (N Y), 2015. 8(1): p. 33 [PMID:26519289] Bessho-Uehara K, et al. Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(32): p. 8969-74 [PMID:27466405]