Table 1.
SET domain-containing protein in plants.
| Class1 | Gp2 | Arabidopsis thaliana3 | Zea Mays4 | Oryza sativa spp. Japonica5 |
|---|---|---|---|---|
| I | 1 | MEA (SDG5; At1g02580; 689aar) | - | - |
| 2 | CLF (SDG1; At2g23380; 902aar) | MEZ1 (AF443596; 931aar) | SDG711 (Os06g16390; 896aar) | |
| 3 | SWN (SDG10; At4g02020; 856aar) | MEZ2 (AF443597; 894aar), MEZ3 (AF443598; 895aar) | SDG718 (Os03g19480; 895aar) | |
| II | 1 | ASHH3 (SDG7; At2g44150; 363aar) | SDG110 (AF545814; 342aar) | SDG724 (Os09g13740; 340aar) |
| ASHH4 (SDG24; At3g59960; 352aar) | - | - | ||
| 2 | ASHR3 (SDG4; At4g30860; 497aar) | - | SDG736 (Os02g39800; 492aar) | |
| 3 | ASHH1 (SDG26; At1g 76710; 492aar) | SDG102 (AY122273; 513aar) | SDG708 (Os04g34980; 518aar) | |
| 4 | ASHH2 (SDG8; At1g77300; 1759aar) | - | SDG725 (Os02g34850; 2133aar) | |
| III | 1 | ATX1 (SDG27; At2g31650; 1062aar) | - | SDG723 (Os09g04890; 1022aar) |
| ATX2 (SDG30; At1g05830; 1193aar) | SDG106 (DR826986; 385aar)*, SDG128 (DV534215; 296aar)* | - | ||
| 2 | ATX3 (SDG14; At3g61740; 902aar) | - | - | |
| ATX4 (SDG16; At4g27910; 912aar) | SDG115 (DN233805; 147aar)* | SDG721 (Os01g11950; 991aar) | ||
| ATX5 (SDG29; At5g53430; 1043aar) | - | SDG705 (Os01g46700; 1057aar) | ||
| 3 | ATXR3 (SDG2; At4g15180; 2351aar) | SDG108 (DV025562; 614aar)* | SDG701 (Os08g08210; 2257aar) | |
| 4 | ATXR7 (SDG25; At5g42400; 1421aar) | SDG127 (DN204179; 141aar)* | SDG717 (Os12g41900; 1212aar) | |
| IV | ATXR5 (SDG15; At5g09790; 352aar) | SDG139 (DV172958; 231aar)* | SDG720 (Os01g73460; 385aar) | |
| ATXR6 (SDG34; At5g24330; 349aar) | SDG129 (BM736459; 109aar)* | SDG730 (Os02g03030; 361aar) | ||
| V | 1 | SUVH1 (SDG32; At5g04940; 670aar) | SDG101 (DV540845; 795aar) | SDG704 (Os11g38900; 813aar), SDG713 (Os03g20430; 627aar) |
| SUVH3 (SDG19; At1g73100; 669aar) | SDG105 (AY093419; 678aar), SDG111 (AY187718; 486aar) | SDG728 (Os05g41170; 672aar) | ||
| SUVH7 (SDG17; At1g17770; 693aar) | SDG113 (AF545813; 766aar) | SDG709 (Os01g59620; 736aar), | ||
| SUVH8 (SDG21; At2g24740; 755aar) | - | SDG733 (Os11g03700; 663aar), SDG734 (Os12g03460; 663aar) | ||
| 2 | SUVH4 (SDG33; At5g13960; 624aar) | SDG118 (AY122271; 696aar) | SDG714 (Os01g70220; 663aar) | |
| SUVH6 (SDG23; At2g22740; 790aar) | - | SDG727 (Os09g19830; 921aar) | ||
| 3 | SUVH2 (SDG3; At2g33290; 651aar) | SDG136 (DN217108; 662aar) | SDG726 (Os07g25450; 684aar) | |
| SUVH9 (SDG22; At4g13460; 650aar) | SDG135 (CF049431; 449aar),* SDG137 (DN232551; 685aar) | SDG715 (Os08g45130; 594aar) | ||
| 4 | SUVR3 (SDG20; At3g03750; 338aar) | SDG116 (CO520549; 128aar)* | SDG729 (Os01g56540; 338aar) | |
| 5 | SUVH5 (SDG9; At2g35160; 794aar) | SDG103 (DN214510, 654aar)*, SDG104 (AY122272; 886aar), SDG119 (DV031465, 508aar)* | SDG703 (Os04g34990; 842aar), SDG710 (Os08g30910; 1173aar) | |
| 6 | SUVR1 (SDG13; At1g04050; 630aar) | - | - | |
| SUVR2 (SDG18; At5g43990; 717aar) | - | SDG712 (Os02g40770; 741aar) | ||
| SUVR4 (SDG31; At3g04380; 492aar) | SDG107 (DV544186; 148aar)* | - | ||
| 7 | SUVR5 (SDG6; At2g23740; 203aar) | SDG117 (AY187719; 1198aar), SDG131 (DN228281; 131aar)* | SDG706 (Os02g47900; 1136aar) | |
| VI | ASHR1 (SDG37; At2g17900; 480aar) | SDG130 (AAL75997; 410aar) | SDG716 (Os03g49730; 403aar) | |
| ASHR2 (SDG39; At2g19640; 398aar) | - | SDG740 (Os08g10470; 392aar) | ||
| ATXR1 (SDG35; At1g26760; 969aar) | SDG122 (DY238779; 534aar) | SDG739 (Os03g07260; 536aar) | ||
| ATXR2 (SDG36; At3g21820; 473aar) | SDG140 (DV505249; 217aar)* | SDG722 (Os04g53700; 517aar) | ||
| ATXR4 (SDG38; At5g06620; 258aar) | SDG123 (AY172976; 303aar) | SDG741 (Os10g27060; 298aar) | ||
| VII | SDG40 (At5g17240; 491aar) | SDG731 (Os07g28840; 479aar) | ||
| Putative RuBisCo SSMT (At3g07670; 504aar) | ||||
| At2g18850 (543aar) | ||||
| At5g14260 (514aar) | ||||
| RuBisCo LSMT (At1g14030; 482aar) | ||||
| At1g01920 (572aar) | ||||
| At1g24610 (476aar) | ||||
| At3g55080 (463aar) | ||||
| At3g56570 (531aar) | ||||
| At4g20130 (483aar) | ||||
SET protein from Arabidopsis, maize and rice were classified into seven classes. Classification of Arabidopsis and maize Class I to V was reported in Springer et al. [22]. Class VI and VII include SET proteins with truncated or interrupted SET domains.
Different orthology groups of Class I to V SET proteins defined by Springer et al. [22].
Arabidopsis SET proteins listed in Pfam database, common name, ChromDB name, locus number and amino acid length are indicated.
Maize SET proteins listed in ChromDB. Asterisk denotes length of partial protein sequence and corresponding accession number of EST sequence.
Rice SET proteins from Chrom DB were queried against Arabidopsis protein database using NCBI BLAST and their domain architecture were determined using NCBI conserved domains database. Phylogenetic relationship between homologous proteins were determined by Vector NTI software (Invitrogen) and the proteins are grouped into different orthology groups corresponding to Arabidopsis and maize SET proteins based on both sequence homology and domain architecture. Locus number and amino acid length are indicated. Rice SDG701, SDG732 and SDG738 were not grouped.