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

Neem_27310_f_1

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

C3H

Protein Properties

Length: 103aa MW: 11341.5 Da PI: 4.763

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_27310_f_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	36.5	8e-12	54	79	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++++ C f++rtG C yG++C+F+H+ Neem_27310_f_1 54 PGEPDCLFYLRTGLCGYGSNCRFNHP 79 5789*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.7E-5	53	80	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.291	53	81	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.5E-9	55	79	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-6	58	80	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.8E-5	59	78	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 103 aa Download sequence Send to blast
MNSVPPMPDN RQVKSNAVSN QSADNIEEAI WRLKIHDSQE GGGVAQSSPY PDRPGEPDCL 60 FYLRTGLCGY GSNCRFNHPA YAAQGTQYRE ELPERVGQPD CGV

Functional Description ? help Back to Top
Source	Description
UniProt	Possesses RNA-binding and ribonuclease activities in vitro. {ECO:0000269\|PubMed:18582464}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006447662.1	1e-58	zinc finger CCCH domain-containing protein 3
Refseq	XP_006469597.1	1e-58	zinc finger CCCH domain-containing protein 3
Swissprot	Q94AD9	1e-31	C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBL	A0A067EWT3	2e-57	A0A067EWT3_CITSI; Uncharacterized protein
TrEMBL	A0A067F7T5	2e-57	A0A067F7T5_CITSI; Uncharacterized protein
TrEMBL	A0A067F8M6	3e-57	A0A067F8M6_CITSI; Uncharacterized protein
TrEMBL	A0A2H5PS26	2e-57	A0A2H5PS26_CITUN; Uncharacterized protein
TrEMBL	A0A2H5PS58	3e-57	A0A2H5PS58_CITUN; Uncharacterized protein
TrEMBL	V4U4N8	3e-57	V4U4N8_9ROSI; Uncharacterized protein
STRING	XP_006469597.1	5e-58	(Citrus sinensis)
STRING	XP_006447662.1	5e-58	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM15746	9	14

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G04990.2	5e-34	C3H family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]