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

Pta005231

Organism

Pinus taeda

Taxonomic ID

3352

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pinus; Pinus

Family

LSD

Protein Properties

Length: 195aa MW: 20686.2 Da PI: 8.2046

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Pta#S24913691	PU_unref	Unigene	View CDS
PUT-157a-Pinus_taeda-117382553	PU_ref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	41	3.2e-13	27	51	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCrtlL YP GAp+V+Ca+C+tV Pta005231 27 CSGCRTLLVYPQGAPNVCCAVCNTV 51 ************************9 PP
2	zf-LSD1	42.2	1.3e-13	66	90	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg CrtlL+Y rGA+sV+C++C+tV Pta005231 66 CGRCRTLLMYVRGATSVQCSCCNTV 90 ************************9 PP
3	zf-LSD1	42.7	8.9e-14	104	128	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C t+L+YP+GApsV+Ca+C+ V Pta005231 104 CGSCFTTLMYPYGAPSVKCAVCHYV 128 **********************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	4.1E-13	24	53	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.7E-12	27	51	IPR005735	Zinc finger, LSD1-type
SuperFamily	SSF48695	2.41E-5	41	127	IPR011031	Multihaem cytochrome
TIGRFAMs	TIGR01053	3.4E-14	63	92	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.0E-12	66	90	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.0E-11	101	131	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.3E-13	104	128	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 195 aa Download sequence Send to blast
MPLHMNPYHP QSMPLPPPNG MQGQLVCSGC RTLLVYPQGA PNVCCAVCNT VTPVPPPGTE 60 MAQLICGRCR TLLMYVRGAT SVQCSCCNTV NLAMEANQVA HVSCGSCFTT LMYPYGAPSV 120 KCAVCHYVTN VGQISNMRMP LPVQRPPAAA TTPASSSALP TRSQTQTVVV ENPMTVDERG 180 KMVSNVAVGV TTEKL

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pta.13941	0.0	root\| shoot\| xylem

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002963886.1	3e-86	protein LOL1
Refseq	XP_002988289.1	3e-86	protein LOL1
Swissprot	Q6ASS2	8e-68	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A0C9RP33	1e-102	A0A0C9RP33_9SPER; TSA: Wollemia nobilis Ref_Wollemi_Transcript_6820_1247 transcribed RNA sequence
STRING	EFJ10708	1e-85	(Selaginella moellendorffii)
STRING	EFJ35757	1e-85	(Selaginella moellendorffii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	2e-60	lsd one like 1

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]