PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 433aa MW: 47605.9 Da PI: 5.978

Description

B-box type zinc finger protein with CCT domain

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G28050.1	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	18.8	3.3e-06	6	46	3	37
zf-B_box 3 erkCpeHeekelqlfCedCqqllCedClleeHkg......H 37 C+ ++e + lfC+ + lC C ++ H H AT1G28050.1 6 RVPCDFCGERTAVLFCRADTAKLCLPCDQQVHTAnllsrkH 46 678*****9*****************99444555555 PP
2	zf-B_box	21.6	4.5e-07	49	80	3	34
zf-B_box 3 erkCpeHeekelqlfCedCqqllCedClleeH 34 ++C+++++++++ C++++ lC++C H AT1G28050.1 49 SQICDNCGNEPVSVRCFTDNLILCQECDWDVH 80 689************************98777 PP
3	CCT	64.9	2.3e-22	385	429	1	45
CCT 1 ReaallRYkeKrktRkFeKkirYesRKavAesRpRvKGrFvkqae 45 R a++RYkeKrktR+++K+irYesRKa+A++R Rv+GrFvk++e AT1G28050.1 385 RGDAMQRYKEKRKTRRYDKTIRYESRKARADTRLRVRGRFVKASE 429 6789**************************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50119	9.741	4	51	IPR000315	B-box-type zinc finger
SMART	SM00336	1.1E-13	4	51	IPR000315	B-box-type zinc finger
CDD	cd00021	8.33E-9	7	51	No hit	No description
PROSITE profile	PS50119	8.603	47	94	IPR000315	B-box-type zinc finger
CDD	cd00021	5.21E-8	51	80	No hit	No description
SMART	SM00336	0.83	52	94	IPR000315	B-box-type zinc finger
PROSITE profile	PS51017	14.922	385	427	IPR010402	CCT domain
Pfam	PF06203	1.1E-16	385	427	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

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009005	anatomy	root
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0025281	anatomy	pollen
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 433 aa Download sequence Send to blast
MSSSERVPCD FCGERTAVLF CRADTAKLCL PCDQQVHTAN LLSRKHVRSQ ICDNCGNEPV 60 SVRCFTDNLI LCQECDWDVH GSCSVSDAHV RSAVEGFSGC PSALELAALW GLDLEQGRKD 120 EENQVPMMAM MMDNFGMQLD SWVLGSNELI VPSDTTFKKR GSCGSSCGRY KQVLCKQLEE 180 LLKSGVVGGD GDDGDRDRDC DREGACDGDG DGEAGEGLMV PEMSERLKWS RDVEEINGGG 240 GGGVNQQWNA TTTNPSGGQS SQIWDFNLGQ SRGPEDTSRV EAAYVGKGAA SSFTINNFVD 300 HMNETCSTNV KGVKEIKKDD YKRSTSGQVQ PTKSESNNRP ITFGSEKGSN SSSDLHFTEH 360 IAGTSCKTTR LVATKADLER LAQNRGDAMQ RYKEKRKTRR YDKTIRYESR KARADTRLRV 420 RGRFVKASEA PYP

Sequence ? help Back to Top

Protein Sequence Length: 433 aa Download sequence Send to blast

MSSSERVPCD FCGERTAVLF CRADTAKLCL PCDQQVHTAN LLSRKHVRSQ ICDNCGNEPV  60
SVRCFTDNLI LCQECDWDVH GSCSVSDAHV RSAVEGFSGC PSALELAALW GLDLEQGRKD  120
EENQVPMMAM MMDNFGMQLD SWVLGSNELI VPSDTTFKKR GSCGSSCGRY KQVLCKQLEE  180
LLKSGVVGGD GDDGDRDRDC DREGACDGDG DGEAGEGLMV PEMSERLKWS RDVEEINGGG  240
GGGVNQQWNA TTTNPSGGQS SQIWDFNLGQ SRGPEDTSRV EAAYVGKGAA SSFTINNFVD  300
HMNETCSTNV KGVKEIKKDD YKRSTSGQVQ PTKSESNNRP ITFGSEKGSN SSSDLHFTEH  360
IAGTSCKTTR LVATKADLER LAQNRGDAMQ RYKEKRKTRR YDKTIRYESR KARADTRLRV  420
RGRFVKASEA PYP

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.19754	0.0	flower\| root\| silique\| vegetative tissue

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	42562363	0.0
Genevisible	259595_at	0.0
Expression Atlas	AT1G28050	-
AtGenExpress	AT1G28050	-
ATTED-II	AT1G28050	-

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G28050.1

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

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT1G56170
IntAct	Search Q9C7E8

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G28050

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY037206	0.0	AY037206.1 Arabidopsis thaliana At1g28050/F13K9_15 mRNA, complete cds.
GenBank	BT002681	0.0	BT002681.1 Arabidopsis thaliana At1g28050/F13K9_15 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_174126.1	0.0	B-box type zinc finger protein with CCT domain-containing protein
Swissprot	Q9C7E8	0.0	COL15_ARATH; Zinc finger protein CONSTANS-LIKE 15
TrEMBL	A0A178WG25	0.0	A0A178WG25_ARATH; BBX13
STRING	AT1G28050.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3871	26	47
Representative plant	OGRP5453	8	13

Link Out ? help Back to Top
Phytozome	AT1G28050.1
Entrez Gene	839698
iHOP	AT1G28050
wikigenes	AT1G28050

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] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] 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] 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] Wenkel S, et al. CONSTANS and the CCAAT box binding complex share a functionally important domain and interact to regulate flowering of Arabidopsis. Plant Cell, 2006. 18(11): p. 2971-84 [PMID:17138697] 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] Arabidopsis Interactome Mapping Consortium Evidence for network evolution in an Arabidopsis interactome map. Science, 2011. 333(6042): p. 601-7 [PMID:21798944] Kim MH,Sonoda Y,Sasaki K,Kaminaka H,Imai R Interactome analysis reveals versatile functions of Arabidopsis COLD SHOCK DOMAIN PROTEIN 3 in RNA processing within the nucleus and cytoplasm. Cell Stress Chaperones, 2013. 18(4): p. 517-25 [PMID:23334891] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]