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 |
54
|
Knots found |
|
sequence length |
175
|
structure length |
174
|
Chain Sequence |
MIVVLRLGHRPEDKRVTTHVALTARAFGADGIIIASEEDEKVKESVEDVVKRWGGPFFIEFNRNWRKVMKEFTGVKVHLTMYGLHVDDVIEELKEKLKKGEDFMIIVGAEKVPREVYELADYNVAIGNQPHSEVAALAVLLDRLLEGKGLKKEFKGAKIKIVPQARGKKVVEVQ
|
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 and mutational study of a unique SpoU family archaeal methylase that forms 2'-O-methylcytidine at position 56 of tRNA
pubmed doi rcsb |
| molecule keywords |
UPF0106 protein PH0461
|
| molecule tags |
Transferase
|
| source organism |
Pyrococcus horikoshii
|
| total genus |
54
|
| structure length |
174
|
| sequence length |
175
|
| chains with identical sequence |
B
|
| other databases |
 KnotProt 2.0: K +31
|
| ec nomenclature |
ec
2.1.1.206: tRNA (cytidine(56)-2'-O)-methyltransferase. |
| pdb deposition date | 2007-04-27 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01994 | Trm56 | tRNA ribose 2'-O-methyltransferase, aTrm56 |
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 4CNF A; 1IPA A; 4MCB A; 4YVG A; 4JAL A; 4YVJ A; 3AI9 X; 4YPZ A; 4YQA A; 4YQ4 A; 3ILK A; 4YQO A; 3BBH A; 5GM8 A; 3O7B A; 1TO0 A; 4XBO A; 4YQR A; 4PZK A; 3IC6 A; 3KY7 A; 3QUV A; 5GMC A; 4E8B A; 4YPW A; 3GYQ A; 4IG6 A; 4YQ6 A; 4KGN A; 1J85 A; 4YVK A; 3KW2 A; 1UAM A; 4YQ3 A; 4H3Y A; 3BBD A; 4CNG A; 1VH0 A; 4L69 A; 5D9F A; 1UAJ A; 4X3L A; 1Z85 A; 1NXZ A; 3N4J A; 4YQQ A; 2EGW A; 4YQL A; 4YQ0 A; 3KNU A; 4FAK A; 1X7O A; 3OIJ A; 2V3J A; 3NK6 A; 2YY8 A; 1O6D A; 1UAL A; 4YQ2 A; 4J3C A; 4YQ1 A; 1OY5 A; 3E5Y A; 4YQC A; 2EGV A; 3AXZ A; 3BBE A; 4MCC A; 4YQ7 A; 4RG1 A; 4YPX A; 4YPY A; 1V2X A; 1NS5 A; 3KTY A; 4YQI A; 1P9P A; 3OIN A; 1MXI A; 2I6D A; 4YQJ A; 4YQN A; 5FAI A; 3AIA A; 5CO4 A; 1V6Z A; 4YQP A; 4YVH A; 1VHY A; 2HA8 A; 2Z0Y A; 4X3M A; 1GZ0 A; 5GMB A; 3IEF A; 3L8U A; 2QWV A; 2V3K A; 1VHK A; 3NK7 A; 4YQ5 A; 4YQD A; 1X7P A; 3DCM X; 3N4K A; 4KDZ A; 4YVI A; 4YQK A; 4MCD A; 3ONP A; 4JAK A; 4H3Z A; 2CX8 A; 4CNE A; 2O3A A; 2QMM A; 4CND A; 4YQG A; 1UAK A; 4YQB A; 4YQ9 A; 3OII A; 4YQ8 A; 4YQT A; 4YQS A; 1K3R A; 1ZJR A; #chains in the Genus database with same CATH topology 4CNF A; 1IPA A; 4MCB A; 4YVG A; 4JAL A; 4YVJ A; 3AI9 X; 4FMW A; 4YPZ A; 4YQA A; 4JWG A; 3ILK A; 4YQ4 A; 4YQO A; 3BBH A; 5GM8 A; 3O7B A; 1TO0 A; 4XBO A; 4YQR A; 4PZK A; 3IC6 A; 3KY7 A; 3QUV A; 5GMC A; 4E8B A; 4YPW A; 3GYQ A; 4IG6 A; 4YQ6 A; 4JWJ A; 4KGN A; 1J85 A; 4YVK A; 3KW2 A; 1UAM A; 4YQ3 A; 4H3Y A; 3BBD A; 4CNG A; 1VH0 A; 4L69 A; 5D9F A; 1UAJ A; 4X3L A; 1Z85 A; 1NXZ A; 3N4J A; 4YQQ A; 2EGW A; 4YQL A; 4YQ0 A; 3KNU A; 4FAK A; 1X7O A; 3OIJ A; 2V3J A; 3NK6 A; 2YY8 A; 1O6D A; 1UAL A; 4YQ2 A; 4J3C A; 4YQ1 A; 1OY5 A; 3E5Y A; 4YQC A; 2EGV A; 3AXZ A; 3BBE A; 4MCC A; 4YQ7 A; 4RG1 A; 4YPX A; 4YPY A; 1V2X A; 1NS5 A; 3KTY A; 4YQI A; 1P9P A; 3OIN A; 1MXI A; 2I6D A; 4YQJ A; 4YQN A; 5FAI A; 3AIA A; 5CO4 A; 1V6Z A; 4YQP A; 4JWH A; 4YVH A; 1VHY A; 2HA8 A; 2Z0Y A; 4X3M A; 1GZ0 A; 5GMB A; 3IEF A; 3L8U A; 2QWV A; 2V3K A; 1VHK A; 3NK7 A; 4YQ5 A; 4YQD A; 1X7P A; 3DCM X; 3N4K A; 4KDZ A; 4YVI A; 4YQK A; 4MCD A; 3ONP A; 4JAK A; 4H3Z A; 2CX8 A; 4CNE A; 2O3A A; 2QMM A; 4CND A; 4YQG A; 1UAK A; 4YQB A; 4JWF A; 4YQ9 A; 3OII A; 4YQ8 A; 4YQT A; 4YQS A; 1K3R A; 1ZJR A; #chains in the Genus database with same CATH homology 4CNF A; 1IPA A; 4MCB A; 4YVG A; 4JAL A; 4YVJ A; 3AI9 X; 4FMW A; 4YPZ A; 4YQA A; 4JWG A; 3ILK A; 4YQ4 A; 4YQO A; 3BBH A; 5GM8 A; 3O7B A; 1TO0 A; 4XBO A; 4YQR A; 4PZK A; 3IC6 A; 3KY7 A; 3QUV A; 5GMC A; 4E8B A; 4YPW A; 3GYQ A; 4IG6 A; 4YQ6 A; 4JWJ A; 4KGN A; 1J85 A; 4YVK A; 3KW2 A; 1UAM A; 4YQ3 A; 4H3Y A; 3BBD A; 4CNG A; 1VH0 A; 4L69 A; 5D9F A; 1UAJ A; 4X3L A; 1Z85 A; 1NXZ A; 3N4J A; 4YQQ A; 2EGW A; 4YQL A; 4YQ0 A; 3KNU A; 4FAK A; 1X7O A; 3OIJ A; 2V3J A; 3NK6 A; 2YY8 A; 1O6D A; 1UAL A; 4YQ2 A; 4J3C A; 4YQ1 A; 1OY5 A; 3E5Y A; 4YQC A; 2EGV A; 3AXZ A; 3BBE A; 4MCC A; 4YQ7 A; 4RG1 A; 4YPX A; 4YPY A; 1V2X A; 1NS5 A; 3KTY A; 4YQI A; 1P9P A; 3OIN A; 1MXI A; 2I6D A; 4YQJ A; 4YQN A; 5FAI A; 3AIA A; 5CO4 A; 1V6Z A; 4YQP A; 4JWH A; 4YVH A; 1VHY A; 2HA8 A; 2Z0Y A; 4X3M A; 1GZ0 A; 5GMB A; 3IEF A; 3L8U A; 2QWV A; 2V3K A; 1VHK A; 3NK7 A; 4YQ5 A; 4YQD A; 1X7P A; 3DCM X; 3N4K A; 4KDZ A; 4YVI A; 4YQK A; 4MCD A; 3ONP A; 4JAK A; 4H3Z A; 2CX8 A; 4CNE A; 2O3A A; 2QMM A; 4CND A; 4YQG A; 1UAK A; 4YQB A; 4JWF A; 4YQ9 A; 3OII A; 4YQ8 A; 4YQT A; 4YQS A; 1K3R A; 1ZJR 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...
