IntAct European Bioinformatics Institute IntAct intact http://www.ebi.ac.uk/ http://www.ebi.ac.uk/intact/query/${ac} EBI-[0-9]+|IA:[0-9]+ INTerAction database (IntAct) provides an open source database and toolkit for the storage, presentation and analysis of molecular interactions. http://www.ebi.ac.uk/intact European Bioinformatics Institute; Wellcome Trust Genome Campus; Hinxton, Cambridge; CB10 1SD; United Kingdom http://www.ebi.ac.uk/intact/ Arabidopsis CONSTANS-LIKE3 is a positive regulator of red light signaling and root growth. Arabidopsis CONSTANS-LIKE3 is a positive regulator of red light signaling and root growth. Plant Cell (1040-4651) 2006 imex curation Datta S., Hettiarachchi GH., Deng XW., Holm M. magnus.holm@molbio.gu.se orchard Only protein-protein interactions allce Allium cepa (Onion) Onion fret fluorescent resonance energy transfer FRET RET FRET analysis FRET RET FRET analysis fret tag fluorescence tag visualisation by fluorescence tag fluorescence Datta S., Hettiarachchi GH., Deng XW., Holm M. Tagged proteins were transformed into onion tissue by particle bombardment. magnus.holm@molbio.gu.se Accepted 2008-DEC-10 by ORCHARD. Plant Cell (1040-4651) 2006 orchard Only protein-protein interactions imex curation Arabidopsis CONSTANS-LIKE3 is a positive regulator of red light signaling and root growth. Arabidopsis CONSTANS-LIKE3 is a positive regulator of red light signaling and root growth. Plant Cell (1040-4651) 2006 imex curation Datta S., Hettiarachchi GH., Deng XW., Holm M. magnus.holm@molbio.gu.se orchard Only protein-protein interactions yeasx Saccharomyces cerevisiae (Baker's yeast) Baker's yeast 2 hybrid two hybrid 2H 2h Gal4 transcription regeneration two-hybrid yeast two hybrid 2-hybrid classical two hybrid classical two hybrid 2H two-hybrid 2-hybrid Gal4 transcription regeneration 2h yeast two hybrid Y2H Y-2H 2 hybrid nucleotide sequence nucleotide sequence identification sequence cloning sequence cloning nucleotide sequence Datta S., Hettiarachchi GH., Deng XW., Holm M. magnus.holm@molbio.gu.se Accepted 2008-DEC-10 by ORCHARD. The authors state they employed a Lambda ACT cDNA expression library (ABRC (Arabidopsis Biological Resource Center ) number CD4-22) into a pACT library. Plant Cell (1040-4651) 2006 orchard Only protein-protein interactions imex curation Arabidopsis CONSTANS-LIKE3 is a positive regulator of red light signaling and root growth. Arabidopsis CONSTANS-LIKE3 is a positive regulator of red light signaling and root growth. Plant Cell (1040-4651) 2006 imex curation Datta S., Hettiarachchi GH., Deng XW., Holm M. magnus.holm@molbio.gu.se orchard Only protein-protein interactions yeasx Saccharomyces cerevisiae (Baker's yeast) Baker's yeast 2 hybrid two hybrid 2H 2h Gal4 transcription regeneration two-hybrid yeast two hybrid 2-hybrid classical two hybrid classical two hybrid 2H two-hybrid 2-hybrid Gal4 transcription regeneration 2h yeast two hybrid Y2H Y-2H 2 hybrid predetermined predetermined participant predetermined Datta S., Hettiarachchi GH., Deng XW., Holm M. magnus.holm@molbio.gu.se Accepted 2008-DEC-10 by ORCHARD. Plant Cell (1040-4651) 2006 orchard Only protein-protein interactions imex curation col3_arath Zinc finger protein CONSTANS-LIKE 3 COL3 F27C12.29 At2g24790 protein protein arath Arabidopsis thaliana (Mouse-ear cress) Mouse-ear cress MASSSRLCDSCKSTAATLFCRADAAFLCGDCDGKIHTANKLASRHERVWLCEVCEQAPAHVTCKADAAALCVTCDRDIHSANPLSRRHERVPITPFYDAVGPAKSASSSVNFVDEDGGDVTASWLLAKEGIEITNLFSDLDYPKIEVTSEENSSGNDGVVPVQNKLFLNEDYFNFDLSASKISQQGFNFINQTVSTRTIDVPLVPESGGVTAEMTNTETPAVQLSPAEREARVLRYREKRKNRKFEKTIRYASRKAYAEMRPRIKGRFAKRTDSRENDGGDVGVYGGFGVVPSF C4D3E3C63A551BB3 cop1_arath E3 ubiquitin-protein ligase COP1 COP1 Constitutive photomorphogenesis protein 1 RING-type E3 ubiquitin transferase COP1 T21L14.11 At2g32950 protein protein arath Arabidopsis thaliana (Mouse-ear cress) Mouse-ear cress MEEISTDPVVPAVKPDPRTSSVGEGANRHENDDGGSGGSEIGAPDLDKDLLCPICMQIIKDAFLTACGHSFCYMCIITHLRNKSDCPCCSQHLTNNQLYPNFLLDKLLKKTSARHVSKTASPLDQFREALQRGCDVSIKEVDNLLTLLAERKRKMEQEEAERNMQILLDFLHCLRKQKVDELNEVQTDLQYIKEDINAVERHRIDLYRARDRYSVKLRMLGDDPSTRNAWPHEKNQIGFNSNSLSIRGGNFVGNYQNKKVEGKAQGSSHGLPKKDALSGSDSQSLNQSTVSMARKKRIHAQFNDLQECYLQKRRQLADQPNSKQENDKSVVRREGYSNGLADFQSVLTTFTRYSRLRVIAEIRHGDIFHSANIVSSIEFDRDDELFATAGVSRCIKVFDFSSVVNEPADMQCPIVEMSTRSKLSCLSWNKHEKNHIASSDYEGIVTVWDVTTRQSLMEYEEHEKRAWSVDFSRTEPSMLVSGSDDCKVKVWCTRQEASVINIDMKANICCVKYNPGSSNYIAVGSADHHIHYYDLRNISQPLHVFSGHKKAVSYVKFLSNNELASASTDSTLRLWDVKDNLPVRTFRGHTNEKNFVGLTVNSEYLACGSETNEVYVYHKEITRPVTSHRFGSPDMDDAEEEAGSYFISAVCWKSDSPTMLTANSQGTIKVLVLAA DIP protein P43254 original sequence version: 138 DIP protein P43254 original sequence version: 113 DIP protein P43254 original sequence version: 114 E6D9A1B702EAE8F0 cop1-col3-3 3 5 unspecified role unspecified role bait bait region required to bind necessary binding region required to bind range range range range P43254:p.Gly524Glu mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain G E Wed May 02 19:44:15 BST 2018 This feature has been corrected as a result of our quality control procedures. The original label was 'gly524glu' Tue Jun 30 16:31:58 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gly524Glu' 4 unspecified role unspecified role prey prey Q9SK53:p.[Val291Ala;Pro292Ala] mutation disrupting mutation disrupting interaction mutation disrupting certain certain sequence position certain certain certain sequence position certain P A certain certain sequence position certain certain certain sequence position certain V A Fri Jul 22 11:09:11 BST 2016 This feature has been corrected as a result of our quality control procedures. The original label was 'pro292ala,val291ala' Wed May 02 19:06:47 BST 2018 This feature has been corrected as a result of our quality control procedures. The original label was 'val291ala,pro292ala' Tue Jun 30 18:56:30 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Val291Ala;Pro292Ala]' physical association physical association The gly523glu mutation has been altered to gly524glu as there is no gly residue at position 523. Figure 1 COL3 Interacts with COP1 in Yeast, and a VP Pair in the C Terminus Is Critical for the Interaction. The authors state that "COL3 is unable to interact with either of the COP1 proteins containing deletions or mutations in the WD40 domain, suggesting that the WD40 domain in COP1 is required for the interaction with COL3". The binding site for COP1 is therefore annotated as the WD40 domain. As the coordinates of the domain are not provided in the text , they are annotated as 'fuzzy coordinates' to denote this (see relevant section of the IntAct annotation manual available on the IntAct website). cop1-col3-1 1 5 unspecified role unspecified role fluorescence accept fluorescence acceptor fluorescence accept region C-terminal cfp tag cyan fluorescent protein tag CFP cyan fluorescent protein cyan fluorescent protein CFP cfp tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined 4 unspecified role unspecified role fluorescence donor fluorescence donor region N-terminal YFP yfp tag yellow fluorescent protein tag YFP yellow fluorescent protein yellow fluorescent protein YFP yfp tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined direct interaction direct interaction Figure 2F As shown in the top panels of Figure 2E, a nucleus coexpressing YFP-COL3 and CFP-COP1 excited with 514- and 405-nm lasers resulted in the emission of YFP and CFP, respectively, before the 514-nm bleach of the region of interest. After the bleach, emission from YFP-COL3 in the region of interest was reduced dramatically, whereas we saw a clear increase in the emission of CFP-COP1 in the region of interest (Figure 2E, bottom panels), indicating that FRET had occurred. cop1-col3-2 2 4 unspecified role unspecified role prey prey c-terminal sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain 5 unspecified role unspecified role bait bait physical association physical association Figure 1A The Zn2+-ligating B-box has been proposed to be a protein interaction domain, but it does not appear to be required for the interaction with COP1 in yeast because all three cDNAs identified in the screen encode a truncated COL3 protein lacking the 75 N-terminal amino acids