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Table 1 Proteins with false-positive detected RING domains that were eliminated from the dataset

From: Evaluation and classification of RING-finger domains encoded by the Arabidopsis genome

Protein ID Reason Remarks
At1g02860 Wrong ligand spacing Spacer between metal ligands 2 and 3 too long
At1g05890 Wrong ligand spacing Protein contains one RING-variant domain
At1g09060 Incomplete  
At1g10170 PHD domain  
At1g55530 Incomplete Protein contains one RING-H2 domain
At1g60360 Incomplete Protein contains one RING-H2 domain
At1g62310 Incomplete  
At1g74870 Incomplete  
At2g28530 Incomplete  
At2g31770 Wrong ligand spacing Either wrong spacing or incomplete
   Protein contains one RING-variant domain
At2g31780 Wrong ligand spacing Either wrong spacing or incomplete
   Protein contains one RING-variant domain
At2g39720 Incomplete Protein contains one RING-H2 domain
At2g42170 Wrong ligand spacing Pseudogene
At2g44330 Incomplete Two false-positive motifs
   Protein contains one RING-H2 domain
At3g05870 Incomplete Protein contains one RING-H2 domain
At3g06330 Wrong ligand spacing  
At3g07610 Incomplete  
At3g08020 PHD domain  
At3g18290 Incomplete Protein contains one RING-H2 domain
At3g19910 Incomplete  
At3g19950 Incomplete Protein contains one RING-H2 domain
At3g23060 Incomplete Two false-positive motifs
At3g42830 Incomplete Rbx1-like
   Protein contains one RING-variant domain
At3g45470 Wrong ligand spacing Protein contains one RING-variant domain
At3g45540 Incomplete Protein contains one RING-variant domain
At3g45630 Incomplete  
At3g48070 Wrong ligand spacing  
At3g52100 PHD domain  
At3g60080 Incomplete Protein contains one RING-H2 domain
At3g62970 Incomplete Protein contains one RING-H2 domain
At4g00070 Incomplete  
At4g01020 Incomplete Protein contains one RING-HC and
   One RING-variant domain
At4g10940 Incomplete  
At4g12150 Incomplete Protein contains one RING-variant domain,
   Which is part of a RING-H2 cluster
At4g26400 Incomplete Protein contains one RING-H2 domain
At4g37880 Incomplete  
At4g39350 Wrong ligand spacing Cellulose synthase
At5g05170 Wrong ligand spacing Cellulose synthase
At5g09870 Wrong ligand spacing Cellulose synthase
At5g10370 Incomplete Protein contains one RING variant domain
At5g15790 Incomplete Protein contains one RING-H2 domain
At5g17420 Wrong ligand spacing Cellulose synthase
At5g23110 Incomplete Protein contains one RING-HC domain
At5g25560 Incomplete Protein contains one RING-H2 domain
At5g28340 Incomplete  
At5g38070 Wrong ligand spacing  
At5g45290 Incomplete  
At5g47430 Incomplete  
At5g52140 Incomplete  
At5g52150 Incomplete  
At5g56340 Incomplete Protein contains one RING-H2 domain
At5g58410 Wrong ligand spacing  
At5g62910 Wrong ligand spacing  
At5g63740 Incomplete  
At5g63750 Incomplete Drosophila Ariadne-like
   Protein contains one RING-variant domain
At5g63970 Incomplete  
At5g64740 Wrong ligand spacing Cellulose synthase
  1. To eliminate false-positive RING domains detected through computational analysis, the complete dataset was curated and false positives were eliminated. The first column shows proteins in which false-positive RING domains were detected. The principal reason for their elimination from the dataset is given in the second column. 'Incomplete', at least two metal ligands are missing; 'wrong ligand spacing', the spacing between the prospective metal ligands is not conserved; 'PHD domain', the domain has a PHD rather than a RING structure. See text for additional criteria for RING domains. Alternative gene names and other remarks are given in the third column. For instance, many of the proteins contain an independent, verified RING domain and are thus also listed in Table 3.