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

ORGLA02G0051400.1

Organism

Oryza glaberrima

Taxonomic ID

4538

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: 252aa MW: 28234 Da PI: 9.5681

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA02G0051400.1	genome	AGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	125.9	1.6e-39	68	145	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+ ORGLA02G0051400.1 68 RCQVEGCGVELVGVKDYHRKHRVCEAHSKFPRVVVAGQERRFCQQCSRFHALSEFDQKKRSCRRRLYDHNARRRKPQT 145 6**************************************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	2.5E-33	61	130	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	31.667	66	143	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.31E-38	67	149	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	9.8E-31	69	142	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: 252 aa Download sequence Send to blast
MDWMPPPKPT SPRSPPLLWD WADAAMPGSS SGEVSAAAAA AAAAHPGRRR KEKRGRAEEG 60 GGGGGEVRCQ VEGCGVELVG VKDYHRKHRV CEAHSKFPRV VVAGQERRFC QQCSRFHALS 120 EFDQKKRSCR RRLYDHNARR RKPQTDVFSY ASARPPSSLL FDDSRQISFV WNKAPLSHVR 180 PFAISPWESS SEVGTTDGHI YLDKSHISKS LPAFNTDIDE LLPMKDFSAA TIWMFFGVLF 240 IRTAQESCMS FH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	8e-25	62	142	4	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	47	52	RRRKEK
2	124	141	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA02G0051400.1

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	AK066057	0.0	AK066057.1 Oryza sativa Japonica Group cDNA clone:J013053E16, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015623077.1	1e-161	squamosa promoter-binding-like protein 4 isoform X3
Swissprot	Q6H509	1e-162	SPL4_ORYSJ; Squamosa promoter-binding-like protein 4
TrEMBL	I1NXQ8	0.0	I1NXQ8_ORYGL; Uncharacterized protein
STRING	ORGLA02G0051400.1	0.0	(Oryza glaberrima)

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	3e-38	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]