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

NNU_004998-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

C3H

Protein Properties

Length: 292aa MW: 34031.6 Da PI: 5.3007

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_004998-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.8	3.2e-07	227	246	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C+f+ +tG C++G+rC++ H NNU_004998-RA 227 CPFHIKTGACRFGSRCSRVH 246 ******************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	12.38	221	249	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.5E-4	227	246	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	1.1E-12	227	246	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	1.1E-12	246	266	IPR009145	U2 auxiliary factor small subunit

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000398	Biological Process	mRNA splicing, via spliceosome
GO:0089701	Cellular Component	U2AF
GO:0003723	Molecular Function	RNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 292 aa Download sequence Send to blast
MTEQVTAEME EKKPLKMESQ VDLCRKERRK IAKKLKRKQI RREIALKERE EEEARLNDPE 60 EQLRIRLKEQ EEAKVLERER KAFEERERLW IEAAKKTEEE AQKKLLEESP NNQIEQENVL 120 KEEDDDNAWD YVEEGPAEII WQGNEIIVKK KRVKVPKKNV DEKPKIEGAD RPTSNPLPPQ 180 SEAFIAYKNT SSISAQEVFE SVAQQIPNFG TEQVYISVLS DSDKAHCPFH IKTGACRFGS 240 RCSRVHFYPD KSCTMLIKNM YNGPGLAWEQ DEGLEKLISR LTSMEIHALD YG

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010252404.1	1e-175	PREDICTED: zinc finger CCCH domain-containing protein 5
Refseq	XP_019052712.1	1e-175	PREDICTED: zinc finger CCCH domain-containing protein 5
Swissprot	Q9SY74	3e-88	C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A1U8Q270	1e-174	A0A1U8Q270_NELNU; zinc finger CCCH domain-containing protein 5
STRING	XP_010252404.1	1e-174	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G10320.1	4e-63	C3H family protein

Publications ? help Back to Top
Lorković ZJ,Wieczorek Kirk DA,Lambermon MH,Filipowicz W Pre-mRNA splicing in higher plants. Trends Plant Sci., 2000. 5(4): p. 160-7 [PMID:10740297] Domon C,Lorković ZJ,Valcárcel J,Filipowicz W Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants. J. Biol. Chem., 1998. 273(51): p. 34603-10 [PMID:9852132]