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

AT2G47890.1

Common Name

COL13, F17A22.28, T9J23

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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

Family

CO-like

Protein Properties

Length: 332aa MW: 37510.2 Da PI: 5.9749

Description

B-box type zinc finger protein with CCT domain

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT2G47890.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-B_box	19.4	2.2e-06	9	41	2	34
zf-B_box 2 eerkCpeHeekelqlfCedCqqllCedClleeH 34 + r C+ +++ + +C+ ++ lC C + H AT2G47890.1 9 RDRLCDYCDSSVALVYCKADSAKLCLACDKQVH 41 5789**************************999 PP
2	zf-B_box	25.2	3.4e-08	54	95	4	41
zf-B_box 4 rkCpeHeekelqlfCedCqqllCedClleeHkg....Htvvp 41 C+ ++e + +lfCe+ ++ lC++C ++H H+++p AT2G47890.1 54 LLCDSCNESPSSLFCETERSVLCQNCDWQHHTAssslHSRRP 95 57***************************7744778887765 PP
3	CCT	60.3	6.5e-21	287	330	1	44
CCT 1 ReaallRYkeKrktRkFeKkirYesRKavAesRpRvKGrFvkqa 44 R+ al+RYkeK+k+R++eK+irYesRK++AesR R++GrF+k+a AT2G47890.1 287 RNSALSRYKEKKKSRRYEKHIRYESRKVRAESRTRIRGRFAKAA 330 899***************************************87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00336	5.4E-15	8	55	IPR000315	B-box-type zinc finger
PROSITE profile	PS50119	10.367	8	55	IPR000315	B-box-type zinc finger
CDD	cd00021	8.05E-6	11	55	No hit	No description
PROSITE profile	PS50119	10.296	51	96	IPR000315	B-box-type zinc finger
Pfam	PF00643	1.9E-5	54	93	IPR000315	B-box-type zinc finger
CDD	cd00021	9.00E-9	55	95	No hit	No description
SMART	SM00336	0.34	56	96	IPR000315	B-box-type zinc finger
Pfam	PF06203	8.1E-15	287	329	IPR010402	CCT domain
PROSITE profile	PS51017	14.743	287	329	IPR010402	CCT domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0009005	anatomy	root
PO:0009029	anatomy	stamen
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 332 aa Download sequence Send to blast
MEAEEGHQRD RLCDYCDSSV ALVYCKADSA KLCLACDKQV HVANQLFAKH FRSLLCDSCN 60 ESPSSLFCET ERSVLCQNCD WQHHTASSSL HSRRPFEGFT GCPSVPELLA IVGLDDLTLD 120 SGLLWESPEI VSLNDLIVSG GSGTHNFRAT DVPPLPKNRH ATCGKYKDEM IRQLRGLSRS 180 EPGCLKFETP DAEIDAGFQF LAPDLFSTCE LESGLKWFDQ QDHEDFPYCS LLKNLSESDE 240 KPENVDRESS VMVPVSGCLN RCEEETVMVP VITSTRSMTH EINSLERNSA LSRYKEKKKS 300 RRYEKHIRYE SRKVRAESRT RIRGRFAKAA DP

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.12948	0.0	bud\| root

Expression -- Microarray ? help Back to Top
Source	ID	E-value
Genevisible	266514_at	0.0
Expression Atlas	AT2G47890	-
AtGenExpress	AT2G47890	-
ATTED-II	AT2G47890	-

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT2G47890.1

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

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT2G47890

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT023413	0.0	BT023413.1 Arabidopsis thaliana At2g47890 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_182310.1	0.0	B-box type zinc finger protein with CCT domain-containing protein
Swissprot	O82256	0.0	COL13_ARATH; Zinc finger protein CONSTANS-LIKE 13
TrEMBL	A0A384L5Q3	0.0	A0A384L5Q3_ARATH; Uncharacterized protein
TrEMBL	C0SV95	0.0	C0SV95_ARATH; Uncharacterized protein At2g47890 (Fragment)
STRING	AT2G47890.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8148	27	36
Representative plant	OGRP7906	8	12

Link Out ? help Back to Top
Phytozome	AT2G47890.1
Entrez Gene	819401
iHOP	AT2G47890
wikigenes	AT2G47890

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Robson F, et al. Functional importance of conserved domains in the flowering-time gene CONSTANS demonstrated by analysis of mutant alleles and transgenic plants. Plant J., 2001. 28(6): p. 619-31 [PMID:11851908] Griffiths S,Dunford RP,Coupland G,Laurie DA The evolution of CONSTANS-like gene families in barley, rice, and Arabidopsis. Plant Physiol., 2003. 131(4): p. 1855-67 [PMID:12692345] S ABA activates ADPR cyclase and cADPR induces a subset of ABA-responsive genes in Arabidopsis. Plant J., 2004. 38(3): p. 381-95 [PMID:15086800] Vogel JT,Zarka DG,Van Buskirk HA,Fowler SG,Thomashow MF Roles of the CBF2 and ZAT12 transcription factors in configuring the low temperature transcriptome of Arabidopsis. Plant J., 2005. 41(2): p. 195-211 [PMID:15634197] Fukamatsu Y, et al. Identification of LOV KELCH PROTEIN2 (LKP2)-interacting factors that can recruit LKP2 to nuclear bodies. Plant Cell Physiol., 2005. 46(8): p. 1340-9 [PMID:15937324] Taki N, et al. 12-oxo-phytodienoic acid triggers expression of a distinct set of genes and plays a role in wound-induced gene expression in Arabidopsis. Plant Physiol., 2005. 139(3): p. 1268-83 [PMID:16258017] Cao D,Cheng H,Wu W,Soo HM,Peng J Gibberellin mobilizes distinct DELLA-dependent transcriptomes to regulate seed germination and floral development in Arabidopsis. Plant Physiol., 2006. 142(2): p. 509-25 [PMID:16920880] Ramel F, et al. Genome-wide interacting effects of sucrose and herbicide-mediated stress in Arabidopsis thaliana: novel insights into atrazine toxicity and sucrose-induced tolerance. BMC Genomics, 2007. 8: p. 450 [PMID:18053238] Feng S, et al. Coordinated regulation of Arabidopsis thaliana development by light and gibberellins. Nature, 2008. 451(7177): p. 475-9 [PMID:18216856] Soitamo AJ,Piippo M,Allahverdiyeva Y,Battchikova N,Aro EM Light has a specific role in modulating Arabidopsis gene expression at low temperature. BMC Plant Biol., 2008. 8: p. 13 [PMID:18230142] Ascencio-Ib Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection. Plant Physiol., 2008. 148(1): p. 436-54 [PMID:18650403] Charron JB,Ouellet F,Houde M,Sarhan F The plant Apolipoprotein D ortholog protects Arabidopsis against oxidative stress. BMC Plant Biol., 2008. 8: p. 86 [PMID:18671872] Jakoby MJ, et al. Transcriptional profiling of mature Arabidopsis trichomes reveals that NOECK encodes the MIXTA-like transcriptional regulator MYB106. Plant Physiol., 2008. 148(3): p. 1583-602 [PMID:18805951] Khanna R, et al. The Arabidopsis B-box zinc finger family. Plant Cell, 2009. 21(11): p. 3416-20 [PMID:19920209] Hanada K, et al. Functional compensation of primary and secondary metabolites by duplicate genes in Arabidopsis thaliana. Mol. Biol. Evol., 2011. 28(1): p. 377-82 [PMID:20736450] Gaudinier A, et al. Enhanced Y1H assays for Arabidopsis. Nat. Methods, 2011. 8(12): p. 1053-5 [PMID:22037706] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]