Table 1.
Wheat RING domain containing proteins grouped based on the presence or absence and organization of the additional domain/s in RING proteins. The possible wheat RING protein orthologs in other species are shown.
| Sr. no. | Group no. | No. of proteins | Representative gene IDs | Additional domain/s | Species* | Domain description |
|---|---|---|---|---|---|---|
| 1 | 1 | 370 | TraesCS1A02G090900 | RING | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Sc | RING domain, protein binding, Zinc ion binding, E3 ubiquitin ligase activity20 |
| 2 | 2 | 3 | TraesCS1A02G088100 | ANK | At, Ce, Dr, Gm, Hs, Mm | Ankyrin repeats; protein–protein interactions61 |
| 3 | 3 | 43 | TraesCS1A02G084200 | Coiled-coil | At, Dd, Dr, Gm, Hs, Mm, Pf | Coiled-coil domain |
| 4 | 4.1 | 2 | TraesCS6A02G145300 | BRAP2, ZnF_UBP | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Pf, Sc, Sp | BRCA1-associated protein 262, Ubiquitin C-terminal hydrolase-like zinc finger; ubiquitinbinding domain |
| 5 | 4.2 | 1 | TraesCS6D02G134300 | Coiled-coil, BRAP2, ZnF_UBP | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Pf, Sc, Sp | See group 3, See group 4.1 |
| 6 | 5 | 1 | TraesCS5B02G111900 | Copine | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm | Ca(2+)-dependent phospholipid-binding proteins63 |
| 7 | 6.1 | 544 | TraesCS1A02G126200 | Transmembrane | At, Ce, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Sc | Transmembrane |
| 8 | 6.2 | 6 | TraesCS7B02G442100 | Transmembrane, coiled-coil | At, Dd, Dm, Dr, Gm, Hs, Mm | See group 6.1, See group 3 |
| 9 | 7.1 | 8 | TraesCS2A02G546000 | IBR | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Sp | IBR, In between ring fingers, cysteine-rich (C6HC) zinc finger domain |
| 10 | 7.2 | 1 | TraesCS2D02G187100 | IBR, Signal peptide | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Sp | See group 7.1, Signal peptide |
| 11 | 8 | 3 | TraesCS1A02G177600 | Coiled-coil, KISc | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm | See group 3, Kinesin motor domain; ATPase activity, role in cell division and organelle transport |
| 12 | 9.1 | 1 | TraesCS1B02G074500 | HELICc | At, Cd, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Pf, Sc, Sco, So, Sp, Sp | Helicase superfamily c-terminal domain; helicase activity; ATP binding; nucleotide-binding64 |
| 13 | 9.2 | 4 | TraesCS2A02G224300 | DEXDc, HELICc | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm | DEAD-like helicases; ATP binding See group 9.1 |
| 14 | 9.3 | 9 | TraesCS2A02G145200 | DEXDc, HELICc, HIRAN | At, Cd, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Pf, Sc, Sp, Spn | See group 9.2, See group 9.1, found in N-terminal regions of SWI2/SNF2 ptoteins65 |
| 15 | 10 | 1 | TraesCS1D02G002400 | PHD, SRA | At, Gm, Dr, Mm, Hs, Dm, Pf, Ld, Dr, Sco | Plant homeodomain C4HC3 type66, SET and RING finger associated domain |
| 16 | 11.1 | 18 | TraesCS3A02G414400 | VWA | At, Ce, Dd, Dr, Gm, Hs, Ld, Mm | Von Willebrand factor (vWF) type A domain |
| 17 | 11.2 | 1 | TraesCS5D02G122000 | Signal peptide, VWA | At, Ce, Dd, Dr, Gm, Hs, Ld, Mm | See group 7.2, See group 11.1 |
| 18 | 12 | 1 | TraesCS3D02G079000 | Coiled-coil, TPR_7 | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Pf | See group 3, TPR_7 |
| 19 | 13.1 | 26 | TraesCS1A02G162400 | Zinc_ribbon_9 | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Pf, Sp | Zinc-binding ribbon domain |
| 20 | 13.2 | 3 | TraesCS5A02G467700 | Zinc_ribbon_9, coiled-coil | At, Dd, Dm, Dr, Gm, Hs, Mm, Pf, Sp | See group 13.1, See group 3 |
| 21 | 13.3 | 2 | TraesCS7A02G169600 | Zinc_ribbon_9, transmembrane | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Pf | See group 13.1, See group 6.1 |
| 22 | 14 | 1 | TraesCS7A02G005100 | NB-ARC | At, Gm | Signalling motif found in bacteria and eukaryotes67 |
| 23 | 15 | 3 | TraesCS1A02G341400 | DUF4792, DUF4793, signal peptide | At, Dd, Dm, Dr, Gm, Hs, Ld, Mm | Domain of unknown function approximately 70 residues, Domain of unknown function approximately 110 residues, See group 7.2 |
| 24 | 16 | 8 | TraesCS1A02G029800 | DUF1117, Zinc_ribbon_9 | At, Dd, Dm, Dr, Gm, Hs, Mm, Pf | Domain of unknown function, See group 13.1 |
| 25 | 17.1 | 1 | TraesCS2B02G577000 | IBR, transmembrane | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Sp | See group 7.1, See group 6.1 |
| 26 | 17.2 | 1 | TraesCS2D02G547300 | IBR, signal peptide, transmembrane | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Sp | See group 7.1, See group 7.2, See group 6.1 |
| 27 | 18 | 3 | TraesCS4A02G162000 | LON_substr_bdg | At, Ce, Dm, Dr, Gm, Hs, Mm, Pa, Pf, Sh, Sp | ATP-dependent protease La (LON) domain; ATP- dependent Ser peptidases68 |
| 28 | 19 | 9 | TraesCS4A02G117900 | PHD | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Pf, Sp | See group 10 |
| 29 | 20.1 | 1 | TraesCS7B02G226400 | PA, TRANSMEMBRANE | At, Ce, Dm, Dr, Gm, Hs, Mm | See group 6.1 |
| 30 | 20.2 | 5 | TraesCS2B02G625300 | PA, signal peptide, transmembrane | At, Ce, Dm, Dr, Gm, Hs, Mm, Sp | See group 7.2, See group 6.1 |
| 31 | 21.1 | 19 | TraesCS1B02G156500 | Signal peptide | At, Ce, Dm, Dr, Gm, Hs, Mm | See group 7.2 |
| 32 | 21.2 | 43 | TraesCS2B02G336300 | Signal peptide, TRANSMEMBRANE | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Sp, Sp | See group 7.2, See group 6.1 |
| 33 | 21.3 | 2 | TraesCS3A02G051000 | Signal peptide, transmembrane, coiled-coil | At, Gm | See group 7.2, See group 6.1, See group 3 |
| 34 | 22 | 6 | TraesCS1A02G025700 | PHD, BRCT | At, Ce, Dd, Dm, Dr, Gm, HS, Ld, Mm, Sp | See group 10 |
| 35 | 23 | 3 | TraesCS2A02G094000 | PHD, coiled-coil, AT_hook | At, Dd, Dr, Gm, Hs, Mm | See group 10, See group 3 |
| 36 | 24.1 | 2 | TraesCS1A02G143300 | Zinc_ribbon_6 | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Pf, Sc, Sp | Zinc-ribbon finger, each pair of zinc-ligands coming from more-or-less either side of two knuckles69 |
| 37 | 24.2 | 8 | TraesCS1D02G142100 | Zinc_ribbon_6, zf-CHY | At, Ce, Dd, Dm, Dr, Gm, Hs, Pf, Sc, Sp | See group 24.1, Zinc ion binding; function unknown70 |
| 38 | 24.3 | 3 | TraesCS1A02G374800 | Zinc_ribbon_6, zf-CHY, Hemerythrin | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Sp | See group 24.1, See group 24.2, responsible for oxygen (O2) transport in the marine invertebrate |
| 39 | 25 | 1 | TraesCS3A02G288900 | ZnF_C2H2 | At, Sp, Dd, Dm, Dr, Gm, Hs, Mm | C2H2-type zinc finger, binds to DNA, RNA and protein targets |
| 40 | 26 | 9 | TraesCS4A02G082400 | ZnF_C3H1 | At, Hs, Ce, Dd, Dm, Dr, Gm, Ld, Mm, Pf, Sc, Sp | Zinc-finger domain C- × 8-C- × 5-C- × 3-H type; nucleic acid binding71 |
| 41 | 27 | 3 | TraesCS6B02G255500 | ZnF_ZZ | At, Dd, Dm, Dr, Gm, Hs, Mm, Pf, Sp | Zinc-finger domain C- × 2-C- × 5-C- × 2-C type72 |
| 42 | 28 | 3 | TraesCS2A02G446100 | IBR, RWD, ZnF_C2HC | At, Ce, Dd, Dm, Dr, Gm, Hs, Mm, Sc, Sp | See group 7.1, function in protein interaction, See group 6.1 |
| 43 | 29.1 | 1 | TraesCS1B02G007900 | SRA, coiled-coil | At, Dr, Dra, Gm, Hs, Mm, Sc, Sc | See group 10, See group 3 |
| 44 | 29.2 | 1 | TraesCS1A02G005700 | Coiled-coil, PHD, SRA | At, Gm, Mm, Hs, Dr, Dra, Sco | See group 3, See group 10, See group 10 |
| 45 | 30 | 6 | TraesCS5D02G213300 | Tmemb_185A | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm | Transmembrane Fragile-X-F protein, linked to FragileXF syndrome |
| 46 | 31.1 | 20 | TraesCS1A02G146700 | Vwaint, VWA | At, Ce, Dd, Dm, Dr, Gm, Hs, Ma, Mm, Pf, Sc, Sh, Sp | Lies between the N-terminal VWA domain and the more C-terminal 'Vint'-type Hint domain73, See group 11.1 |
| 47 | 31.2 | 3 | TraesCS2A02G364100 | Vwaint, Signal peptide, VWA | At, Ce, Dm, Dr, Gm, Hs, Ld, Ma, Mm, Pf, Sc, So, Sp | See group 31.1, See group 7.2, See group 11.1 |
| 48 | 31.3 | 2 | TraesCS4B02G344200 | Coiled-coil, Vwaint, VWA | At, Dr, Gm, Hs, Ma, Mm, Sco, So, Ssp. | See group 3, See group 31.1, See group 11.1 |
| 49 | 32.1 | 4 | TraesCS3B02G567600 | Transmembrane, DUF1232 | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Mm, Pf, Sc | See group 6.1, Domain of unknown function representing a conserved region of approximately 60 residues |
| 50 | 32.2 | 23 | TraesCS1A02G206100 | Transmembrane, DUF3675 | At, Ce, Dd, Dr, Gm, Hs, Mm | See group 6.1, Domain of unknown function approximately 120 amino acids in length |
| 51 | 33 | 2 | TraesCS2A02G227400 | Transmembrane, CUE | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, MM, Pf, Sc, Sp | See group 6.1, Involved in binding ubiquitin-conjugating enzymes; ubiquitin-binding motif74 |
| 52 | 34.1 | 3 | TraesCS1A02G263800 | WD40 | At, Ce, Dd, Dm, Dr, Gm, Hs, Ma, Mm, Sc, Sp, Ssp. | Found as tandem repeats each containing a central Trp/Asp motif; Phospho-Ser/Thr-binding domain75 |
| 53 | 34.2 | 3 | TraesCS6A02G326100 | WD40, coiled-coil | At, Ce, Dd, Dm, Dr, Gm, Hs, Ld, Ma, Mm, Sc, Sp | See group 34.1, See group 3 |
| 54 | 35 | 2 | TraesCS2D02G141100 | GIDE, signal peptide | At, Dd, Dm, Dr, Gm, Hs, Ld, Mm | E3 ubiquitin ligase involved in inducing apoptosis76, See group 7.2 |
| 55 | 36 | 3 | TraesCS4A02G011000 | GIDE, transmembrane | At, Ce, Dd, Dm, Dr, Gm, HS, Ld, Mm, Pf | See group 35, See group 6.1 |
*Species having similar domain architecture in RING proteins determined by NCBI BLASTp search in model organisms (landmark) database only.
At: Arabidopsis thaliana, Cd: Clostridioides difficile, Ce: C. elegans, Dd: Dictyostelium discoideum, Dm: Drosophila melanogaster, Dr: Danio rerio, Dra: Deinococcus radiodurans, Gm: Glycine max, Hs: Homo sapiens, Ld: Leishmania donovani, Ma: Microcystis aeruginosa, Mm: M. musculus, Pa: Pseudomonas aeruginosa, Pf: Plasmodium falciparum, Sc: Saccharomyces cerevisiae, Sco: Streptomyces coelicolor, So: Shewanella oneidensis, Sp: Schizosaccharomyces pombe, Spn: Streptococcus pneumonia, Ssp.: Synechocystis sp., Xl: Xenopuslaevis, Zm: Zea mays.