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_009139023.1

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: 364aa MW: 41072.7 Da PI: 7.4984

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009139023.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.2e-05	204	223	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++Cp C k+F+r n++ H+ XP_009139023.1 204 FSCPVCFKTFNRYNNMQMHM 223 89*****************9 PP
2	zf-C2H2	14.5	0.00011	288	310	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C +Cgk F + + ++H +++ XP_009139023.1 288 FMCRKCGKAFAVRGDWRTHEKNC 310 89*****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00355	0.38	204	226	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.2E-6	204	223	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	9.64	204	231	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	206	226	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.77E-6	270	308	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.0E-5	284	308	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	49	288	308	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	8.808	288	308	IPR007087	Zinc finger, C2H2

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: 364 aa Download sequence Send to blast
MADPYSNFFT GWFKPNPFHN YLNSSSNPSS PLPPPSSFFL IPHPGDLRRP PPTTPPSPPP 60 REALPLLSLS PANKQQNHHD LIQEPPSTSM DVDYGHHHHQ VDHNLDKDDH DVTVALSIGL 120 PSPSTRDMAS LFMMSSSSSS SRTTNHHENI NDKKDPHNDY HHGSAGGGED DDEDSAGGCR 180 ISRLNKYQYW IPTPSQILIG PTQFSCPVCF KTFNRYNNMQ MHMWGHGSQY RKGPESLRGT 240 QPTGMLRLPC YCCSPGCRNN IDHPRAKPLK DFRTLQTHYN RKHGIKPFMC RKCGKAFAVR 300 GDWRTHEKNC GKLWYCICGS DFKHKRSLKD HIKAFGNGHG AYGIDGFDEE DEPASEVEQL 360 DNDQ

Sequence ? help Back to Top

Protein Sequence Length: 364 aa Download sequence Send to blast

MADPYSNFFT GWFKPNPFHN YLNSSSNPSS PLPPPSSFFL IPHPGDLRRP PPTTPPSPPP  60
REALPLLSLS PANKQQNHHD LIQEPPSTSM DVDYGHHHHQ VDHNLDKDDH DVTVALSIGL  120
PSPSTRDMAS LFMMSSSSSS SRTTNHHENI NDKKDPHNDY HHGSAGGGED DDEDSAGGCR  180
ISRLNKYQYW IPTPSQILIG PTQFSCPVCF KTFNRYNNMQ MHMWGHGSQY RKGPESLRGT  240
QPTGMLRLPC YCCSPGCRNN IDHPRAKPLK DFRTLQTHYN RKHGIKPFMC RKCGKAFAVR  300
GDWRTHEKNC GKLWYCICGS DFKHKRSLKD HIKAFGNGHG AYGIDGFDEE DEPASEVEQL  360
DNDQ

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.25840	0.0	flower

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_009139023.1

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	AC189469	0.0	AC189469.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB078G17, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009139023.1	0.0	PREDICTED: zinc finger protein WIP2-like
Swissprot	Q9SVY1	0.0	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	M4DDP4	0.0	M4DDP4_BRARP; Uncharacterized protein
STRING	Bra014612.1-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]