The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.
Total Genus |
46
|
Knots found |
|
sequence length |
156
|
structure length |
156
|
Chain Sequence |
MLNIVLYEPEIPPNTGNIIRLCANTGFRLHIIEPMGFAWDDKRLRRAGLDYHEFTAVTRHHDYRAFLEAENPQRLFALTTKGTPAHSAVSYQDGDYLMFGPETRGLPASILDALPAEQKIRIPMVPDSRSMNLSNAVSVVVYEAWRQLGYPGAVLR
|
The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Crystal structure of tRNA/rRNA methyltransferase YibK from Escherichia coli (Target NYSGRC-012599)
rcsb |
| molecule keywords |
tRNA (cytidine(34)-2'-O)-methyltransferase
|
| molecule tags |
Transferase
|
| source organism |
Escherichia coli
|
| total genus |
46
|
| structure length |
156
|
| sequence length |
156
|
| other databases |
 KnotProt 2.0: K +31
|
| ec nomenclature |
ec
2.1.1.207: tRNA (cytidine(34)-2'-O)-methyltransferase. |
| pdb deposition date | 2013-04-25 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF00588 | SpoU_methylase | SpoU rRNA Methylase family |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 3-Layer(aba) Sandwich | Alpha/beta knot | Alpha/beta knot |
#chains in the Genus database with same CATH superfamily 2I6D A; 4CNF A; 4YQ9 A; 4KGN A; 1J85 A; 4YVJ A; 2V3J A; 4X3L A; 3ILK A; 2EGV A; 5GM8 A; 2V3K A; 1VHK A; 4YPW A; 4YQK A; 1IPA A; 4YQ8 A; 4YVK A; 4YQL A; 4L69 A; 4JAL A; 1GZ0 A; 4E8B A; 3OII A; 2HA8 A; 4CND A; 4YQN A; 4YQJ A; 1V6Z A; 3DCM X; 4YQ0 A; 2CX8 A; 4YQB A; 4PZK A; 3NK7 A; 3KNU A; 4H3Z A; 4YQI A; 4YQT A; 1VH0 A; 1ZJR A; 4YQ7 A; 1MXI A; 3KTY A; 3BBD A; 5D9F A; 1NXZ A; 3BBE A; 3KY7 A; 1P9P A; 2YY8 A; 3IEF A; 3L8U A; 1NS5 A; 5FAI A; 4YQP A; 4FAK A; 3O7B A; 2Z0Y A; 4YPY A; 3N4K A; 1UAK A; 4YQQ A; 4YQO A; 4X3M A; 1Z85 A; 4H3Y A; 4YVG A; 3N4J A; 4KDZ A; 1UAJ A; 1V2X A; 3OIJ A; 4YVI A; 4CNG A; 4YQA A; 3AIA A; 4JAK A; 3AI9 X; 1UAM A; 5GMC A; 4YQC A; 4YQG A; 1OY5 A; 2QMM A; 2EGW A; 4YVH A; 4YQ5 A; 1X7O A; 1VHY A; 3NK6 A; 4YQR A; 2O3A A; 4YQS A; 1O6D A; 3GYQ A; 3AXZ A; 3IC6 A; 1X7P A; 4YQ6 A; 3OIN A; 4YQD A; 4YQ3 A; 4YQ1 A; 4XBO A; 4YQ2 A; 1K3R A; 1TO0 A; 4YPX A; 3BBH A; 4RG1 A; 2QWV A; 3E5Y A; 3ONP A; 4YPZ A; 1UAL A; 3KW2 A; 4IG6 A; 4CNE A; 5CO4 A; 4MCB A; 4MCC A; 4YQ4 A; 3QUV A; 4J3C A; 4MCD A; 5GMB A; #chains in the Genus database with same CATH topology 2I6D A; 4CNF A; 4YQ9 A; 4KGN A; 1J85 A; 4YVJ A; 2V3J A; 4X3L A; 3ILK A; 2EGV A; 5GM8 A; 2V3K A; 1VHK A; 4YPW A; 4YQK A; 1IPA A; 4YQ8 A; 4YVK A; 4YQL A; 4L69 A; 4JAL A; 1GZ0 A; 4E8B A; 3OII A; 2HA8 A; 4CND A; 4YQN A; 4YQJ A; 1V6Z A; 3DCM X; 4YQ0 A; 2CX8 A; 4YQB A; 4PZK A; 3NK7 A; 3KNU A; 4H3Z A; 4YQI A; 4YQT A; 1VH0 A; 1ZJR A; 4YQ7 A; 1MXI A; 3KTY A; 3BBD A; 5D9F A; 1NXZ A; 3BBE A; 3KY7 A; 1P9P A; 2YY8 A; 3IEF A; 3L8U A; 1NS5 A; 5FAI A; 4YQP A; 4FAK A; 3O7B A; 2Z0Y A; 4YPY A; 3N4K A; 1UAK A; 4YQQ A; 4YQO A; 4X3M A; 1Z85 A; 4JWG A; 4H3Y A; 4YVG A; 3N4J A; 4KDZ A; 1UAJ A; 1V2X A; 3OIJ A; 4YVI A; 4CNG A; 4YQA A; 4FMW A; 4JWF A; 3AIA A; 4JAK A; 3AI9 X; 1UAM A; 5GMC A; 4YQC A; 4YQG A; 1OY5 A; 2QMM A; 2EGW A; 4YVH A; 4YQ5 A; 1X7O A; 1VHY A; 3NK6 A; 4YQR A; 2O3A A; 4YQS A; 1O6D A; 3GYQ A; 3AXZ A; 3IC6 A; 1X7P A; 4YQ6 A; 3OIN A; 4YQD A; 4YQ3 A; 4YQ1 A; 4XBO A; 4YQ2 A; 1K3R A; 1TO0 A; 4YPX A; 3BBH A; 4RG1 A; 2QWV A; 3E5Y A; 3ONP A; 4YPZ A; 4JWJ A; 4JWH A; 1UAL A; 3KW2 A; 4IG6 A; 4CNE A; 5CO4 A; 4MCB A; 4MCC A; 4YQ4 A; 3QUV A; 4J3C A; 4MCD A; 5GMB A; #chains in the Genus database with same CATH homology 2I6D A; 4CNF A; 4YQ9 A; 4KGN A; 1J85 A; 4YVJ A; 2V3J A; 4X3L A; 3ILK A; 2EGV A; 5GM8 A; 2V3K A; 1VHK A; 4YPW A; 4YQK A; 1IPA A; 4YQ8 A; 4YVK A; 4YQL A; 4L69 A; 4JAL A; 1GZ0 A; 4E8B A; 3OII A; 2HA8 A; 4CND A; 4YQN A; 4YQJ A; 1V6Z A; 3DCM X; 4YQ0 A; 2CX8 A; 4YQB A; 4PZK A; 3NK7 A; 3KNU A; 4H3Z A; 4YQI A; 4YQT A; 1VH0 A; 1ZJR A; 4YQ7 A; 1MXI A; 3KTY A; 3BBD A; 5D9F A; 1NXZ A; 3BBE A; 3KY7 A; 1P9P A; 2YY8 A; 3IEF A; 3L8U A; 1NS5 A; 5FAI A; 4YQP A; 4FAK A; 3O7B A; 2Z0Y A; 4YPY A; 3N4K A; 1UAK A; 4YQQ A; 4YQO A; 4X3M A; 1Z85 A; 4JWG A; 4H3Y A; 4YVG A; 3N4J A; 4KDZ A; 1UAJ A; 1V2X A; 3OIJ A; 4YVI A; 4CNG A; 4YQA A; 4FMW A; 4JWF A; 3AIA A; 4JAK A; 3AI9 X; 1UAM A; 5GMC A; 4YQC A; 4YQG A; 1OY5 A; 2QMM A; 2EGW A; 4YVH A; 4YQ5 A; 1X7O A; 1VHY A; 3NK6 A; 4YQR A; 2O3A A; 4YQS A; 1O6D A; 3GYQ A; 3AXZ A; 3IC6 A; 1X7P A; 4YQ6 A; 3OIN A; 4YQD A; 4YQ3 A; 4YQ1 A; 4XBO A; 4YQ2 A; 1K3R A; 1TO0 A; 4YPX A; 3BBH A; 4RG1 A; 2QWV A; 3E5Y A; 3ONP A; 4YPZ A; 4JWJ A; 4JWH A; 1UAL A; 3KW2 A; 4IG6 A; 4CNE A; 5CO4 A; 4MCB A; 4MCC A; 4YQ4 A; 3QUV A; 4J3C A; 4MCD A; 5GMB A;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
