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

Vang03g00910.3

Organism

Vigna angularis

Taxonomic ID

3914

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

C3H

Protein Properties

Length: 612aa MW: 72317.4 Da PI: 7.1086

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vang03g00910.3	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	18.6	3.4e-06	187	206	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C+f+++tG C++G rC++ H Vang03g00910.3 187 CPFHLKTGACRFGRRCSRVH 206 ******************99 PP
2	zf-CCCH	30	9e-10	318	345	1	26
--S---SGGGGTS..--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartG..tCkyGdrCkFaHg 26 +k ++C ++++G tC++G C+F+H+ Vang03g00910.3 318 WKVAICGEYMKSGfkTCSRGTACNFIHC 345 899************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	11.92	181	209	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.6	182	208	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	1.1E-31	187	206	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	1.1E-31	206	226	IPR009145	U2 auxiliary factor small subunit
Gene3D	G3DSA:3.30.70.330	2.8E-22	213	313	IPR012677	Nucleotide-binding alpha-beta plait domain
PROSITE profile	PS50102	9.405	213	315	IPR000504	RNA recognition motif domain
PRINTS	PR01848	1.1E-31	244	259	IPR009145	U2 auxiliary factor small subunit
SuperFamily	SSF54928	6.58E-13	247	315	IPR012677	Nucleotide-binding alpha-beta plait domain
PRINTS	PR01848	1.1E-31	272	294	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	1.1E-31	299	323	IPR009145	U2 auxiliary factor small subunit
PROSITE profile	PS50103	10.878	317	347	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.5E-5	317	346	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.9E-7	318	345	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	1.1E-31	337	349	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: 612 aa Download sequence Send to blast
MEDGKSMGRK EKRKAMKKMK RKQTRKEAAE SERREEEDRL NDPEEQRRMQ LLEQEEAERM 60 QRDTILFQER EKAFMDMIIT RQRQQQQQER DQEQSIDHDN EFEYVVQEEG PPEIIWQGNE 120 IIFNKKQLRV RVPDTDTHNN FSQQNDDIRP TSNPLPPESE SESRTQNLQD VAEQIPNFGT 180 EQDKAHCPFH LKTGACRFGR RCSRVHFIPD KSSTLLMENM YNGPGLACDR DQDEGLEYTD 240 EEIDRCFEEF XEDVHTEFLK FGEIVNFKVC KNGSFHLRGN VYVQYKALDS ALLAANLINR 300 HDFTGKRVTC QFVNLTRWKV AICGEYMKSG FKTCSRGTAC NFIHCFRNPG GDYEWADSDK 360 PPPKFWVEKM IALFGYSDDY ETSREQGNFS LSKTDSDRYH CRRSRSRETD RLSCGHSGRR 420 KHEDERKQRT PYEDRNASLK NTHKRKSRGT TDTDSDREWL EKEEIRERRH EYTRNGSFNK 480 RRDENSRSHE EDSDMDCDTR DNEKQHGRNP RKCDNDIRVW INEAAGLDGD RDVRKHRIRE 540 SSGHQSGDAS ESNKDLFGRV EMETLHDHFR KTYSHRRSGV QVSVKGRDQN DKVDRDGSRK 600 DSYKRDHHKR K*

Sequence ? help Back to Top

Protein Sequence Length: 612 aa Download sequence Send to blast

MEDGKSMGRK EKRKAMKKMK RKQTRKEAAE SERREEEDRL NDPEEQRRMQ LLEQEEAERM  60
QRDTILFQER EKAFMDMIIT RQRQQQQQER DQEQSIDHDN EFEYVVQEEG PPEIIWQGNE  120
IIFNKKQLRV RVPDTDTHNN FSQQNDDIRP TSNPLPPESE SESRTQNLQD VAEQIPNFGT  180
EQDKAHCPFH LKTGACRFGR RCSRVHFIPD KSSTLLMENM YNGPGLACDR DQDEGLEYTD  240
EEIDRCFEEF XEDVHTEFLK FGEIVNFKVC KNGSFHLRGN VYVQYKALDS ALLAANLINR  300
HDFTGKRVTC QFVNLTRWKV AICGEYMKSG FKTCSRGTAC NFIHCFRNPG GDYEWADSDK  360
PPPKFWVEKM IALFGYSDDY ETSREQGNFS LSKTDSDRYH CRRSRSRETD RLSCGHSGRR  420
KHEDERKQRT PYEDRNASLK NTHKRKSRGT TDTDSDREWL EKEEIRERRH EYTRNGSFNK  480
RRDENSRSHE EDSDMDCDTR DNEKQHGRNP RKCDNDIRVW INEAAGLDGD RDVRKHRIRE  540
SSGHQSGDAS ESNKDLFGRV EMETLHDHFR KTYSHRRSGV QVSVKGRDQN DKVDRDGSRK  600
DSYKRDHHKR K*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4yh8_A	2e-29	178	372	9	182	Splicing factor U2AF 23 kDa subunit
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vang03g00910.3

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015038	0.0	AP015038.1 Vigna angularis var. angularis DNA, chromosome 5, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017436312.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 5 isoform X3
Swissprot	Q9SY74	1e-165	C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A0S3S1J1	0.0	A0A0S3S1J1_PHAAN; Uncharacterized protein
STRING	XP_007148590.1	0.0	(Phaseolus vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G10320.1	1e-138	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]