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

Vradi07g25460.1

Organism

Vigna radiata

Taxonomic ID

157791

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: 499aa MW: 52041 Da PI: 7.3241

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi07g25460.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	37.9	3e-12	110	134	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C++++rtG Ck+G++Ck++H++ Vradi07g25460.1 110 QPVCQYYMRTGSCKFGASCKYHHPR 134 689********************96 PP
2	zf-CCCH	35	2.4e-11	156	180	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 +++C+++ +tG+Ck+G++CkF+H++ Vradi07g25460.1 156 EKECSYYVKTGQCKFGATCKFHHPQ 180 679********************97 PP
3	zf-CCCH	37.7	3.5e-12	321	346	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++++tG+Ck+G++C+++H+p Vradi07g25460.1 321 DQPECHYYMKTGECKFGPSCRYHHPP 346 689*********************97 PP
4	zf-CCCH	30.7	5.3e-10	368	392	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++C ++ + G Ck+G+ CkF H++ Vradi07g25460.1 368 APPCTHYTQRGVCKFGSACKFDHPM 392 689********************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	15.779	107	135	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.6E-7	107	134	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.75E-6	110	135	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.9E-10	110	134	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.7E-5	112	134	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.324	153	181	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.06E-6	154	181	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.8E-5	155	180	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.7E-9	156	180	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.5E-4	159	179	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.577	319	347	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.3E-5	319	346	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-9	321	346	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.93E-6	322	347	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.2E-4	325	345	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.69	365	393	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.2E-5	365	392	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-7	368	392	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.14E-5	369	395	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	9.7E-5	370	390	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: 499 aa Download sequence Send to blast
MERYGRASEG SQSDPSPEWT VAGADAGIEG DSIYIICYSL HDSRFALNNA ECGNNGSRFD 60 LDFANNAESS WQHGLAAAES YPLRPDEADY LEVIGAAART GGEFPERVGQ PVCQYYMRTG 120 SCKFGASCKY HHPRQAAGAA TPVPLNYYGY PLRVGEKECS YYVKTGQCKF GATCKFHHPQ 180 PAGVQVISPS PVPAVSHLPV PVPSPVYPTV QPQSGPSQQQ YGVLVARPPM LPGSVVQGPY 240 GPMVVSPAMV PFSGWGPYQA PATTPVMPSS SASNVGSTQL YGITPLPSSP ATFTGPYQPS 300 GSSVGPSGAI QKEHPFPERP DQPECHYYMK TGECKFGPSC RYHHPPDKGA PKANVILSPV 360 GLPLRPGAPP CTHYTQRGVC KFGSACKFDH PMGSLSYSPS ASSLADMPVA PYPVGSSIGT 420 LAPSSSSSEL RPELGGGVSK ESVSSRMSSM STSTGSVGLT LSSVGPISHS GTQPSAQSSS 480 SSATTSATTS STVSHTSS*

Sequence ? help Back to Top

Protein Sequence Length: 499 aa Download sequence Send to blast

MERYGRASEG SQSDPSPEWT VAGADAGIEG DSIYIICYSL HDSRFALNNA ECGNNGSRFD  60
LDFANNAESS WQHGLAAAES YPLRPDEADY LEVIGAAART GGEFPERVGQ PVCQYYMRTG  120
SCKFGASCKY HHPRQAAGAA TPVPLNYYGY PLRVGEKECS YYVKTGQCKF GATCKFHHPQ  180
PAGVQVISPS PVPAVSHLPV PVPSPVYPTV QPQSGPSQQQ YGVLVARPPM LPGSVVQGPY  240
GPMVVSPAMV PFSGWGPYQA PATTPVMPSS SASNVGSTQL YGITPLPSSP ATFTGPYQPS  300
GSSVGPSGAI QKEHPFPERP DQPECHYYMK TGECKFGPSC RYHHPPDKGA PKANVILSPV  360
GLPLRPGAPP CTHYTQRGVC KFGSACKFDH PMGSLSYSPS ASSLADMPVA PYPVGSSIGT  420
LAPSSSSSEL RPELGGGVSK ESVSSRMSSM STSTGSVGLT LSSVGPISHS GTQPSAQSSS  480
SSATTSATTS STVSHTSS*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi07g25460.1

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	AP015034	0.0	AP015034.1 Vigna angularis var. angularis DNA, chromosome 1, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014510178.1	0.0	zinc finger CCCH domain-containing protein 34
Swissprot	Q6NPN3	1e-127	C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBL	A0A0L9TSM4	0.0	A0A0L9TSM4_PHAAN; Uncharacterized protein
STRING	XP_007154244.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF983	34	117

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47850.3	1e-112	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]