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

AMDW01037510.1_FGP001

Organism

Oryza longistaminata

Taxonomic ID

4528

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: 175aa MW: 18667.4 Da PI: 5.0817

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AMDW01037510.1_FGP001	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	68.9	1e-21	129	175	1	47
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTS CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCs 47 +CqvegC+adl+ +++yhrrhkvCe+h+ka++++v ++ qrfCqqCs AMDW01037510.1_FGP001 129 ACQVEGCTADLTGVRDYHRRHKVCEMHAKATTAVVGNTVQRFCQQCS 175 5*********************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	1.1E-22	123	175	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	19.555	127	175	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	5.89E-21	128	175	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.0E-15	130	175	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: 175 aa Download sequence Send to blast
MDRRDKRLFG WDLNDWRWDS DRFVATPVPA AEASGLALNS SPSSSEEAGA ASVRNVNVRG 60 DSDKRKRVVV IDDDDVEDDE LVENGGGSLS LRIGGDAVAH GAGVGGGADE EDRNGKKIRV 120 QGGSPSGPAC QVEGCTADLT GVRDYHRRHK VCEMHAKATT AVVGNTVQRF CQQCS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wj0_A	5e-20	126	175	2	51	squamosa promoter-binding protein-like 12
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AMDW01037510.1_FGP001

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC092557	0.0	AC092557.7 Oryza sativa chromosome 3 BAC OSJNBa0096I06 genomic sequence, complete sequence.
GenBank	AK065741	0.0	AK065741.1 Oryza sativa Japonica Group cDNA clone:J013040K13, full insert sequence.
GenBank	AK069847	0.0	AK069847.1 Oryza sativa Japonica Group cDNA clone:J023034C10, full insert sequence.
GenBank	AK121030	0.0	AK121030.1 Oryza sativa Japonica Group cDNA clone:J023050G23, full insert sequence.
GenBank	AP014959	0.0	AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015631511.1	1e-116	squamosa promoter-binding-like protein 6 isoform X1
Refseq	XP_015631512.1	1e-116	squamosa promoter-binding-like protein 6 isoform X2
Swissprot	Q75LH6	1e-117	SPL6_ORYSJ; Squamosa promoter-binding-like protein 6
TrEMBL	A0A0P0W5D7	1e-118	A0A0P0W5D7_ORYSJ; Os03g0833300 protein (Fragment)
STRING	ORUFI03G41710.1	1e-116	(Oryza rufipogon)
STRING	OS03T0833300-02	1e-116	(Oryza sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1998	38	92

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G60030.1	6e-25	squamosa promoter-binding protein-like 12

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]