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

Brast03G041800.1.p

Organism

Brachypodium stacei

Taxonomic ID

1071399

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium

Family

LSD

Protein Properties

Length: 132aa MW: 14087.1 Da PI: 9.3066

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Brast03G041800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	25.7	1.9e-08	23	45	1	23
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCd 23 C+gC tlL Y+rGA ++RC+ C Brast03G041800.1.p 23 CSGCLTLLYYTRGAANIRCSRCS 45 **********************6 PP
2	zf-LSD1	40.4	4.8e-13	61	84	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg Crt+L+YP+GA VRCa C++ Brast03G041800.1.p 61 CGRCRTTLMYPPGAVTVRCATCQH 84 ***********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	2.1E-10	21	48	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.8E-8	23	45	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	8.0E-11	58	85	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.7E-12	61	84	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 132 aa Download sequence Send to blast
MPRCTSSING QSDNTAAMSE MICSGCLTLL YYTRGAANIR CSRCSRVNST RSASQIAHLT 60 CGRCRTTLMY PPGAVTVRCA TCQHDNCVRG QGSSAPPDAR PQTVLVENPR TMNDKGKLVS 120 NVAVGVTSWK R*

Functional Description ? help Back to Top
Source	Description
UniProt	Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Brast03G041800.1.p

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	AK249896	5e-83	AK249896.1 Hordeum vulgare subsp. vulgare cDNA clone: FLbaf55k22, mRNA sequence.
GenBank	AK353682	5e-83	AK353682.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, partial cds, clone: NIASHv1002A12.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003573341.1	2e-88	protein LOL4
Swissprot	Q84UR0	2e-54	LOL4_ORYSJ; Protein LOL4
TrEMBL	I1I0P3	4e-87	I1I0P3_BRADI; Uncharacterized protein
STRING	BRADI3G14290.1	7e-88	(Brachypodium distachyon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12333	29	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	2e-28	LSD family protein

Link Out ? help Back to Top
Phytozome	Brast03G041800.1.p

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]