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Table 3 List of Arabidopsis RING domains

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

  Protein-ID S1 S2 S3 S4 Alternative names and remarks
(1) RING-HC: 118 domains in 111 proteins
Cluster 1.1 At1g19310 + + + +  
  At1g74990 + + + +  
  At2g23780 + + + +  
  At2g42030 + + + +  
  AT3g58030 + + + +  
  AT4g03510 + + + + RMA1, ubiquitin ligase activity [29]
  AT4g27470 + + + +  
  AT4g28270 + + + +  
Cluster 1.2 At1g62370 + + - -  
  AT3g07120 + + - -  
  AT3g25030 + + - -  
  AT4g03960 + + - -  
  AT4g13100 + + - -  
  AT4g22250 + + - -  
Cluster 1.3 At1g57800 + + + + Second motif in protein
  At1g57820 + + + + Second motif in protein
  At1g66040 + + + + Second motif in protein
  At1g66050 + + + + Second motif in protein
  AT4g08590 + + + +  
  AT5g39550 + + + + Second motif in protein
Cluster 1.4 At1g57800 + + + - Second motif in protein
  At1g57820 + + + - Second motif in protein
  At1g66040 + + + - Second motif in protein
  At1g66050 + + + - Second motif in protein
  AT5g39550 + + + - Second motif in protein
Cluster 1.5 AT3g06140 + + + +  
  AT3g09770 + + + +  
  AT3g53410 + + + +  
  AT5g03200 + + + +  
  AT5g19080 + + + +  
Cluster 1.6 At1g24440 + + + +  
  AT3g47160 + + + + Potential RNA-binding protein
  AT5g01520 + + + +  
  AT5g58790 + + + +  
Cluster 1.7 At1g66620 + - - -  
  At1g66630 - - - - Likely not to be a RING
  AT5g37870 + - - -  
  AT5g37910 + - - -  
Cluster 1.8 At2g41980 + - - -  
  AT3g58040 + - - -  
  AT3g61790 + - - - Seven in absentia-like
  AT4g27880 + - - -  
Cluster 1.9 At1g69330 + + + -  
  At1g74370 + + + -  
  AT3g29270 + + + -  
Cluster 1.10 At1g01350 + + + +  
  AT4g01020 + + + + Second motif in protein
  AT5g06420 + + + +  
Cluster 1.11 At1g30860 + + + +  
  At2g34920 + + + +  
  AT5g44690 + + + -  
Cluster 1.12 AT5g07270 + + + -  
  AT5g57740 + + + -  
Cluster 1.13 At1g59560 + - - -  
  At1g63900 + - - -  
Cluster 1.14 At1g79110 + - - -  
  AT3g12920 + - - -  
Cluster 1.15 AT5g22750 + + + +  
  AT5g43530 + + + + Putative DNA-repair protein
Cluster 1.16 At1g03370 + - - -  
  AT4g03000 + - - -  
Cluster 1.17 AT3g01650 + - - -  
  AT5g14420 + - - -  
Cluster 1.18 At1g03770 + + + +  
  AT5g44280 + + + +  
Cluster 1.19 At1g32530 + + - -  
  At2g35330 + + - -  
Cluster 1.20 At1g10650 + - - - Apoptosis inhibitor-like
  At1g60610 + - - -  
Cluster 1.21 At2g38190 + - - -  
  AT5g01450 + - - -  
Cluster 1.22 At2g47090 + + + +  
  AT3g62240 + + + +  
Cluster 1.23 AT4g19700 + - - -  
  AT5g45100 + - - -  
Cluster 1.24 AT3g23280 - - - - Likely not to be a RING
  AT4g14360 + - - - Ankyrin-like protein
Unique At1g05050 + - - - Putative transcription factor
  At1g05120 + + + -  
  At1g18660 + + + +  
  At1g21650 + + + - Putative SecA-type plastid protein transport factor
  At1g32740 + - - -  
  At1g55250 + + + +  
  At1g61620 + + + +  
  At1g67180 + + + +  
  At1g67800 + - - -  
  At1g68820 + - - -  
  At1g79380 + - - -  
  At1g79810 - - - - Likely not to be a RING
  At2g22010 + + + +  
  At2g25380 + + + +  
  At2g26350 + + + + Putative peroxisome membrane protein
  At2g28840 + + - - Ankyrin repeat protein
  At2g30580 + + + +  
  At2g32950 + + + + COP1, putative ubiquitin ligase [39]
  At2g39100 + + + +  
  At2g40770 + + + - SNF2/SWI2-like protein
  At2g44410 + + + +  
  At2g44950 + + + +  
  AT3g05250 + + + -  
  AT3g05670 + + + +  
  AT3g07200 + + + -  
  AT3g24800 + + + + PRT1, N-end rule ubiquitin ligase [35]
       Second motif in protein
  AT3g24800 + + + - PRT1, N-end rule ubiquitin ligase [35]
       Second motif in protein
  AT3g26730 + + + +  
  AT3g27330 + + + +  
  AT3g54360 + + + +  
  AT4g01740 + + + +  
  AT4g17680 + + + +  
  AT4g21070 + + + -  
  AT4g33940 + + + +  
  AT5g01160 + + + +  
  AT5g05130 + + + + Helicase-like protein
  AT5g13530 + + + - Ankyrin repeat protein
  AT5g19430 + + + +  
  AT5g23110 + + - -  
  AT5g47050 + - - -  
  AT5g63700 + + + +  
(2) RING-H2: 215 domains in 214 proteins
Cluster 2.1 At1g04360 + + + -  
  At1g20810 + + + +  
  At1g22500 + + + +  
  At1g23980 + + + +  
  At1g28040 + + + +  
  At1g32360 + + + +  
  At1g33480 + + + +  
  At1g35330 + + + +  
  At1g49200 + + + +  
  At1g49210 + + + +  
  At1g49220 + + + +  
  At1g49230 + + + +  
  At1g53820 + + + +  
  At1g72200 + + + +  
  At1g72220 + + + +  
  At1g72310 + + + + ATL3
  At1g74410 + + + +  
  At1g76410 + + + +  
  At2g17460 + + + + Pseudogene
  At2g17730 + + + -  
  At2g18650 + + + +  
  At2g20030 + + + -  
  At2g27940 + + + -  
  At2g34990 + + + +  
  At2g35000 + + + +  
  At2g35420 + + + +  
  At2g35910 + + + +  
  At2g37580 + + + +  
  At2g42350 + + + +  
  At2g42360 + + + +  
  At2g46160 + + + +  
  At2g47560 + + + +  
  AT3g03550 + + + +  
  AT3g05200 + + + - ATL6
  AT3g10910 + + + +  
  AT3g11110 + + + +  
  AT3g14320 + + + +  
  AT3g16720 + + + +  
  AT3g18930 + + + +  
  AT3g19140 - - - - Likely not to be a RING
  AT3g48030 + + + +  
  AT3g60220 + + + + ATL4
  AT3g61550 + + + +  
  AT3g62690 + + + + ATL5
  AT4g09100 + + + +  
  AT4g09110 + + + +  
  AT4g09120 + + + +  
  AT4g09130 + + + +  
  AT4g10150 + + + +  
  AT4g10160 + + + +  
  AT4g15970 + + + +  
  AT4g17910 + + + +  
  AT4g17920 + + + +  
  AT4g28890 + + + -  
  AT4g30400 + + + +  
  AT4g35480 + + + + RHA3b
  AT4g35840 + + + -  
  AT4g38140 + + + -  
  AT4g40070 + + + -  
  AT5g01880 + + + +  
  AT5g05280 + + + +  
  AT5g05810 + + + +  
  AT5g06490 + + + +  
  AT5g07040 + + + -  
  AT5g10380 + + + +  
  AT5g17600 + + + +  
  AT5g27420 + + + -  
  AT5g40250 + + + +  
  AT5g42200 + + + +  
  AT5g43420 + + + -  
  AT5g46650 + + + +  
  AT5g47610 + + + +  
  AT5g57750 + + + +  
  AT5g58580 + + + +  
  AT5g66070 + + + -  
Cluster 2.2 At1g14200 + + + -  
  At1g26800 + + + +  
  At1g55530 + + + +  
  At1g60360 + + + +  
  At1g68180 + + + +  
  At2g03000 + + + +  
  At2g39720 + + + +  
  At2g40830 + + + +  
  At2g44330 + + + +  
  AT3g02340 + + + +  
  AT3g10810 + + + +  
  AT3g13430 + + + +  
  AT3g19950 + + + +  
  AT3g30460 + + + +  
  AT3g46620 + + + +  
  AT3g60080 + + + +  
  AT4g26400 + + + +  
  AT5g01980 + + + +  
  AT5g02750 + + + +  
  AT5g08140 + + + +  
  AT5g15820 + + + +  
  AT5g20910 + + + + AIP2
  AT5g56340 + + + +  
  AT5g59550 + + + +  
  AT5g60820 + + + +  
  AT5g64920 + + + + CIP8, ubiquitin ligase activity [32]
Cluster 2.3 At1g17970 + + + +  
  At1g45180 + + + +  
  At1g53190 + + + +  
  At1g73760 + + + +  
  At2g15530 + + + +  
  AT3g15070 + + + +  
  AT4g31450 + + + +  
  AT4g34040 + + + +  
  AT5g10650 + + + +  
  AT5g24870 + + + +  
  AT5g42940 + + + +  
Cluster 2.4 At1g12760 + + + -  
  At1g63170 + + + -  
  At1g68070 + + + -  
  At1g80400 + + + -  
  AT3g61180 + + + -  
  AT4g11680 + + + +  
  AT4g26580 + + + +  
  AT4g32600 + + + -  
Cluster 2.5 At1g63840 + + + -  
  AT3g43430 + + + +  
  AT3g61460 + + + +  
  AT4g11360 + + + - RHA1b
  AT4g11370 + + + -  
  AT5g20880 + + + +  
  AT5g41400 + + + -  
Cluster 2.6 AT5g37200 + + + +  
  AT5g37230 + + + +  
  AT5g37250 + + + +  
  AT5g37270 + + + +  
  AT5g37280 + + + +  
Cluster 2.7 AT3g02290 + + + +  
  AT4g23450 + + + +  
  AT5g15790 + + + +  
  AT5g38890 + + + +  
  AT5g41350 + + + +  
Cluster 2.8 AT4g05350 + + + +  
  AT4g12140 + + + +  
  AT4g12150 - - - - Variant, ligand missing!
  AT4g12190 + + + +  
  AT4g12210 + + + +  
Cluster 2.9 At1g19680 + + + +  
  At1g75400 + + + +  
  At2g21500 + + + +  
  AT4g39140 + + + +  
  AT5g18260 + + + +  
Cluster 2.10 At1g22670 + + + +  
  At1g35630 + + + +  
  At1g71980 + + + + RMRJR702
  AT4g09560 + + + +  
  AT5g66160 + + + + RMRJR700
Cluster 2.11 At1g51930 + + + +  
  AT5g41430 + + + +  
  AT5g41440 + + + +  
  AT5g41450 + + + -  
Cluster 2.12 AT3g62970 - - - -  
  AT5g18650 - - - -  
  AT5g22920 - - - - PGPD14-like protein
  AT5g25560 - - - -  
Cluster 2.13 At1g08050 + + + +  
  At2g38970 + + + + Putative pol polyprotein
  AT3g54780 + + + +  
  AT5g60710 + + + +  
Cluster 2.14 At1g18910 - - - - Likely not to be a RING
  At1g74760 - - - - Likely not to be a RING
  AT3g18290 - - - - Likely not to be a RING
Cluster 2.15 At2g24480 + + + +  
  AT3g28620 + + + +  
  AT5g43200 + + + +  
Cluster 2.16 At1g15100 - - - - Likely not to be a RING
  At2g01150 - - - - RHA2b, likely not to be a RING
Cluster 2.17 At1g65040 + + + +  
  AT3g16090 + + + +  
Cluster 2.18 AT3g14970 + - - -  
  AT3g15740 + - - -  
Cluster 2.19 At2g44580 + + + + Second nearly identical motif in protein
  At2g44580 + + + + Second nearly identical motif in protein
Cluster 2.20 At2g22680 + + + - Putative pol polyprotein
  AT4g37890 + + + +  
Cluster 2.21 At2g18670 + + + +  
  AT4g30370 + + + +  
Cluster 2.22 AT4g25230 - - - - Likely not to be a RING
  AT5g51450 - - - - Likely not to be a RING
Unique At1g04790 + + + +  
  At1g24580 + + + +  
  At1g27010 + + + +  
  At1g49850 + + + + RHY1a
  At1g53010 + + + -  
  At1g55410 - - - - Likely not to be a RING
  At1g57730 + + + +  
  At1g70910 + + + +  
  At1g74620 + + + +  
  At2g04240 + + + -  
  At2g05170 + + + +  
  At2g15260 + + + -  
  At2g15580 + + + -  
  At2g20650 + + + -  
  At2g26000 + + + +  
  At2g28920 + + + -  
  At2g47700 + + + -  
  AT3g05870 + + + -  
  AT3g47180 + + + +  
  AT3g47990 + + + -  
  AT3g55530 + + + +  
  AT3g58720 + + + +  
  AT4g01270 + + + +  
  AT4g13490 + + + -  
  AT4g14220 + + + + RHF1a
  AT4g18110 + + + +  
  AT5g05530 + + + +  
  AT5g05910 + + + +  
  AT5g54990 + + + +  
  AT5g57820 + + + +  
  AT5g67120 + + + +  
RING variants
(3) RING-HC, C6 or C7 position substituted or missing: 41 domains in 39 proteins
Cluster 3.1 At2g26130 - - - - Second motif in protein
  At2g26130 - - - - Second motif in protein
  AT3g43180 + + + +  
  AT3g43750 - - - -  
  AT3g45510 - - - -  
  AT3g45540 - - - -  
  AT3g45560 - - - -  
  AT3g45570 - - - -  
  AT3g45580 - - - -  
  AT5g60250 + + + + Second motif in protein
Cluster 3.2 At1g05890 - - - -  
  At1g65430 - - - -  
  At2g31510 - - - - Dm Ariadne-like
  At2g31760 - - - - Dm Ariadne-like
  At2g31770 - - - - Dm Ariadne-like
  At2g31780 - - - - Dm Ariadne-like
Cluster 3.3 At1g50410 + + + + Putative DNA-binding protein
  AT3g16600 + + + + Putative DNA-binding protein
  AT3g20010 + + + + RUSH1-alpha-like protein
Cluster 3.4 At2g16090 - - - -  
  AT3g27710 - - - -  
  AT4g34370 - - - -  
Cluster 3.5 AT5g63750 - - - - Dm Ariadne-like
  AT5g63760 - - - -  
Cluster 3.6 AT4g01020 - - - - Second motif in protein
  AT5g10370 - - - -  
Cluster 3.7 At2g25360 - - - -  
  AT3g45470 - - - -  
Unique At1g11100 - - - - RUSH1 alpha-like protein
  At1g32340 - - - -  
  At1g61140 - - - -  
  At2g19610 - - - -  
  AT3g14250 - - - -  
  AT3g45480 + + + +  
  AT3g45580 - - - - Second motif in protein
  AT3g53690 - - - -  
  AT3g54460 - - - -  
  AT4g19670 - - - - Second motif in protein
  AT4g19670 - - - - Second motif in protein
  AT5g07640 - - - -  
  At5g60250 - - - - Second motif in protein
  At5g60250 - - - - Second motif in protein
(4) RING-H2, C7 position substituted or missing: two domains in two proteins
  AT3g42830 + + + + Rbx1-like
  AT5g37220 - - - -  
(5) C4 or C5 position substituted or missing: nine domains in nine proteins
Cluster 5.1 At1g18760 - - - -  
  At1g18770 - - - -  
  At1g18780 - - - -  
  At1g21960 - - - -  
  At2g29840 - - - -  
  AT5g53910 - - - - Likely not to be a RING
  At1g77830 - - - - RHA1b-like
Unique At1g36950 - - - -  
  At2g34000 - - - -  
(6) C2 position substituted or missing: two domains in two proteins
  At2g37150 - - - -  
  AT5g63760 - - - - Second motif in protein
  1. List of Arabidopsis proteins (Protein-ID) that contain a manually curated RING domain according to the criteria described in the text. The table is divided into three principal sections: RING domains of the RING-HC type; RING domains of the RING-H2 type; and RING-variant domains. In addition, the domains are ordered in numbered clusters according to a single-linkage-clustering method with a 10-15 threshold as described in the text. If an individual domain meets the requirements of one of the stringent patterns 1 to 4 (S1-S4) (see Table 2), it is indicated by a plus sign, if not, it is indicated by a minus sign. Additional remarks such as previously assigned gene names and significant similarities are given in the last column, The remark 'likely not to be a RING' refers to the presence of an aromatic residue two positions in front of metal-ligand position 7 as outlined in the text.