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

EcS758421.10

Organism

Eucalyptus camaldulensis

Taxonomic ID

34316

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Myrtales; Myrtaceae; Myrtoideae; Eucalypteae; Eucalyptus

Family

C3H

Protein Properties

Length: 36aa MW: 4129.76 Da PI: 8.5174

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
EcS758421.10	genome	ECGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	31.1	4.1e-10	14	35	2	23
-S---SGGGGTS--TTTTT-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkF 23 ++++C+f+++ G C++GdrC++ EcS758421.10 14 DRVNCPFYFKIGACRHGDRCSR 35 689*****************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	10.577	12	36	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.0E-7	14	35	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: 36 aa Download sequence Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4yh8_A	2e-15	1	35	1	35	Splicing factor U2AF 23 kDa subunit
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Necessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites. {ECO:0000250}.
UniProt	Necessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites. {ECO:0000250}.
UniProt	Necessary for the splicing of pre-mRNA. {ECO:0000250}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018463526.1	1e-20	PREDICTED: splicing factor U2af small subunit B, partial
Refseq	XP_028058763.1	2e-20	splicing factor U2af small subunit B-like isoform X2
Refseq	XP_028058764.1	2e-20	splicing factor U2af small subunit B-like isoform X3
Swissprot	Q9FMY5	1e-19	U2AFB_ARATH; Splicing factor U2af small subunit B
Swissprot	Q9S709	9e-20	U2AFA_ARATH; Splicing factor U2af small subunit A
Swissprot	Q9ZQW8	1e-19	U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBL	A0A1J7H766	8e-20	A0A1J7H766_LUPAN; Uncharacterized protein
STRING	ONIVA05G27760.1	3e-20	(Oryza nivara)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G44785.1	9e-22	C3H family protein

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] Day IS, et al. Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing. Plant J., 2012. 71(6): p. 936-47 [PMID:22563826] Kim DW,Jeon SJ,Hwang SM,Hong JC,Bahk JD The C3H-type zinc finger protein GDS1/C3H42 is a nuclear-speckle-localized protein that is essential for normal growth and development in Arabidopsis. Plant Sci., 2016. 250: p. 141-153 [PMID:27457991] Park HY, et al. The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms. Plant Cell Rep., 2017. 36(7): p. 1113-1123 [PMID:28432478] 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]