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

cra_locus_2141_iso_3

Organism

Catharanthus roseus

Taxonomic ID

4058

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus

Family

C3H

Protein Properties

Length: 461aa MW: 53523.3 Da PI: 6.2999

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_2141_iso_3	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	22.8	1.6e-07	262	281	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C+f+++tG C++G rC++ H cra_locus_2141_iso_3_len_1511_ver_3 262 CPFHLKTGACRFGTRCSRVH 281 ******************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	12.23	256	284	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.7E-5	261	281	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	5.6E-30	262	281	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	5.6E-30	281	301	IPR009145	U2 auxiliary factor small subunit
Gene3D	G3DSA:3.30.70.330	1.2E-21	287	307	IPR012677	Nucleotide-binding alpha-beta plait domain
PROSITE profile	PS50102	11.162	351	439	IPR000504	RNA recognition motif domain
SMART	SM00360	0.0022	352	435	IPR000504	RNA recognition motif domain
Gene3D	G3DSA:3.30.70.330	1.2E-21	357	437	IPR012677	Nucleotide-binding alpha-beta plait domain
SMART	SM00361	1.5E-4	367	435	IPR003954	RNA recognition motif domain, eukaryote
SuperFamily	SSF54928	9.81E-16	369	438	IPR012677	Nucleotide-binding alpha-beta plait domain
PRINTS	PR01848	5.6E-30	396	418	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	5.6E-30	423	447	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:0000166	Molecular Function	nucleotide binding
GO:0003723	Molecular Function	RNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 461 aa Download sequence Send to blast
XGRGRAANSN FYAXNKNPKT PPAGSVRISN KHPITVIGDS GGIELTIMEE NEPRSALAAE 60 SRMNRKEKRK AAKKEKRKQK RKELAEKDRW EDEVRLNDPE EQRQIQLEEE EERVRLERER 120 KEFEERERLF LEALARKKAQ EEEEEERRRV LSEEEQKLKE QDMEANGDEE WEYVEEGPPE 180 IIWQGNEIIV KKNKVRVKKK SSDNRFLEKE GENRPTSNPL PPQSEAFADY SSASGRLSAQ 240 QLLENVAQQT PNFGTEQDKA HCPFHLKTGA CRFGTRCSRV HFYPDKSCTL LIKNMYNGPG 300 LAWEQDEGLE VCXEVTTEVH HKMTEVLGPG LAWLEFKDFH SVSCTSLNNI STITIHLIPF 360 FYTEEEVEHS FEEFYEDVHT EFLKFGEIMN FKVCRNGSHH LRGNVYVHYK SLESAMFAYH 420 SISGRYFAGK QVNCEFVAVT RWKVAICGEY MKSNLKVKYA S

Sequence ? help Back to Top

Protein Sequence Length: 461 aa Download sequence Send to blast

XGRGRAANSN FYAXNKNPKT PPAGSVRISN KHPITVIGDS GGIELTIMEE NEPRSALAAE  60
SRMNRKEKRK AAKKEKRKQK RKELAEKDRW EDEVRLNDPE EQRQIQLEEE EERVRLERER  120
KEFEERERLF LEALARKKAQ EEEEEERRRV LSEEEQKLKE QDMEANGDEE WEYVEEGPPE  180
IIWQGNEIIV KKNKVRVKKK SSDNRFLEKE GENRPTSNPL PPQSEAFADY SSASGRLSAQ  240
QLLENVAQQT PNFGTEQDKA HCPFHLKTGA CRFGTRCSRV HFYPDKSCTL LIKNMYNGPG  300
LAWEQDEGLE VCXEVTTEVH HKMTEVLGPG LAWLEFKDFH SVSCTSLNNI STITIHLIPF  360
FYTEEEVEHS FEEFYEDVHT EFLKFGEIMN FKVCRNGSHH LRGNVYVHYK SLESAMFAYH  420
SISGRYFAGK QVNCEFVAVT RWKVAICGEY MKSNLKVKYA S

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4yh8_A	2e-12	362	453	64	155	Splicing factor U2AF 23 kDa subunit
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	72	80	KKEKRKQKR

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010252404.1	1e-150	PREDICTED: zinc finger CCCH domain-containing protein 5
Refseq	XP_019052712.1	1e-150	PREDICTED: zinc finger CCCH domain-containing protein 5
Swissprot	Q9SY74	1e-143	C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A1U8Q270	1e-149	A0A1U8Q270_NELNU; zinc finger CCCH domain-containing protein 5
STRING	XP_010252404.1	1e-150	(Nelumbo nucifera)

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]