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

XP_009116471.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

C2H2

Protein Properties

Length: 385aa MW: 43460.4 Da PI: 7.1612

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009116471.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16	3.4e-05	220	239	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++Cp C k+F+r n++ H+ XP_009116471.1 220 FSCPVCFKTFNRYNNMQMHM 239 89*****************9 PP
2	zf-C2H2	15.1	6.7e-05	304	326	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C +Cgk+F + + ++H +++ XP_009116471.1 304 FMCRKCGKVFAVRGDWRTHEKNC 326 89*****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00355	0.38	220	242	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.6E-6	220	239	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	9.64	220	247	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	222	242	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.83E-6	286	324	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.4E-5	291	324	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	37	304	324	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 385 aa Download sequence Send to blast
MTDPYSNFFT GWFKSNPFHH YPNSSTSPSP PPPHSSFFFP HSGDLHRPPP APTPPPSPPL 60 REALPLLSLS PANKQQPHHT IKFKNHLHHH DHQIQEPPSI SMDVDYDHHH HQDDHNLDDH 120 DHDVTVALHI GLPSPSPQDM ASLLMMSSSS SSSRPTTHYL EDMNGKKDLD NDYHQGGVGG 180 GEDDDEDSVG GDGGCRISRL NKGQYWIPTP SQILIGPTQF SCPVCFKTFN RYNNMQMHMW 240 GHGSQYRKGP ESLRGTQPTG MLRLPCYCCA PGCRNNIDHP RAKPLKDFRT LQTHYKRKHG 300 IKPFMCRKCG KVFAVRGDWR THEKNCGKLW YCICGSDFKP KRSLKDHIKA FGNGHGAYGI 360 DGFDEEDEPA SEVEQLDNDH ESISK

Sequence ? help Back to Top

Protein Sequence Length: 385 aa Download sequence Send to blast

MTDPYSNFFT GWFKSNPFHH YPNSSTSPSP PPPHSSFFFP HSGDLHRPPP APTPPPSPPL  60
REALPLLSLS PANKQQPHHT IKFKNHLHHH DHQIQEPPSI SMDVDYDHHH HQDDHNLDDH  120
DHDVTVALHI GLPSPSPQDM ASLLMMSSSS SSSRPTTHYL EDMNGKKDLD NDYHQGGVGG  180
GEDDDEDSVG GDGGCRISRL NKGQYWIPTP SQILIGPTQF SCPVCFKTFN RYNNMQMHMW  240
GHGSQYRKGP ESLRGTQPTG MLRLPCYCCA PGCRNNIDHP RAKPLKDFRT LQTHYKRKHG  300
IKPFMCRKCG KVFAVRGDWR THEKNCGKLW YCICGSDFKP KRSLKDHIKA FGNGHGAYGI  360
DGFDEEDEPA SEVEQLDNDH ESISK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in developing carpels (PubMed:17600712). Expressed in the shoot apical meristem and the replum (PubMed:25039392). {ECO:0000269\|PubMed:17600712}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for normal differentiation of the ovary transmitting tract cells and pollen tube growth. In Arabidopsis, the transmitting tract facilitates the transport of pollen tubes to the ovules for fertilization (PubMed:17600712). May play a role in the regulation of AGL8/FUL, which is required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:23515580). Plays a role in replum development by the activation of the homeobox protein KNAT1 (PubMed:25039392). {ECO:0000269\|PubMed:17600712, ECO:0000269\|PubMed:23515580, ECO:0000269\|PubMed:25039392}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009116471.1

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	AF254447	0.0	AF254447.1 Arabidopsis thaliana WIP2 protein (WIP2) mRNA, complete cds.
GenBank	BT021089	0.0	BT021089.1 Arabidopsis thaliana At3g57670 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009116471.1	0.0	PREDICTED: LOW QUALITY PROTEIN: zinc finger protein WIP2
Swissprot	Q9SVY1	0.0	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	M4CT04	0.0	M4CT04_BRARP; Uncharacterized protein
STRING	Bra007346.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM239	28	237

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57670.1	1e-164	C2H2 family protein

Publications ? help Back to Top
Crawford BC, et al. Plant development. Genetic control of distal stem cell fate within root and embryonic meristems. Science, 2015. 347(6222): p. 655-9 [PMID:25612610] Boex-Fontvieille E, et al. An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence. Front Plant Sci, 2016. 7: p. 1246 [PMID:27625656]