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 |
62
|
Knots found |
|
sequence length |
225
|
structure length |
211
|
Chain Sequence |
b'PPVLTSKDKITKRMIVVLAMASLETHKIYVLLNCDDHQGLLDISEARPDITHQCLLTLLDSPINKAGKLQVYIQTSRGILIEVNPTVRIPRTFKRFSGLMVQLLHKLSIRSVNSEEKLLKVIKNPITDHLPTKCRKVTLSFDAPVIRVQDYIEKLDDDESICVFVGAMARGKDNFADEYVDEKVGLSNYPLSASVACSKFCHGAEDAWNIL'
|
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 |
Structural insight into the functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis.
pubmed doi rcsb |
| molecule keywords |
Essential for mitotic growth 1
|
| source organism |
Saccharomyces cerevisiae
|
| molecule tags |
Ribosomal protein
|
| total genus |
62
|
| structure length |
211
|
| sequence length |
225
|
| chains with identical sequence |
B
|
| other databases |
 KnotProt 2.0: K +31
|
| ec nomenclature |
ec
2.1.1.260: rRNA small subunit pseudouridine methyltransferase Nep1. |
| pdb deposition date | 2010-08-19 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF03587 | EMG1 | EMG1/NEP1 methyltransferase |
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 1TO0 A; 4CND A; 4FAK A; 4YQ5 A; 2V3J A; 2V3K A; 1O6D A; 4JAL A; 4YVJ A; 1ZJR A; 1NS5 A; 3ILK A; 5GM8 A; 1UAL A; 4H3Y A; 4YQ0 A; 1MXI A; 4YVH A; 2EGV A; 1GZ0 A; 4XBO A; 3N4J A; 4YQD A; 2Z0Y A; 3KW2 A; 4MCD A; 4KGN A; 3AI9 X; 2CX8 A; 1NXZ A; 3GYQ A; 1K3R A; 4YQ9 A; 4YQ2 A; 4JAK A; 4YQB A; 1X7P A; 5CO4 A; 3E5Y A; 4YQK A; 3AXZ A; 5GMC A; 4YQA A; 3KY7 A; 3BBE A; 4X3M A; 3KTY A; 4YQ3 A; 4YQ4 A; 3NK6 A; 1UAM A; 3BBH A; 4YQ8 A; 4YQG A; 3NK7 A; 4CNF A; 3BBD A; 5GMB A; 1VHK A; 4YQI A; 1P9P A; 4RG1 A; 4YQS A; 4YQN A; 2HA8 A; 2EGW A; 3N4K A; 1UAJ A; 1VH0 A; 4YQP A; 1V2X A; 4YVG A; 4YPZ A; 1OY5 A; 4YPX A; 4E8B A; 4YVI A; 4YQL A; 1VHY A; 2QWV A; 4H3Z A; 4YPW A; 4YQ6 A; 1J85 A; 1IPA A; 4YQ1 A; 4CNG A; 5FAI A; 4YQQ A; 3OIJ A; 3QUV A; 4J3C A; 2O3A A; 1Z85 A; 3KNU A; 4YQ7 A; 3DCM X; 2YY8 A; 1X7O A; 4YQJ A; 3O7B A; 3OIN A; 3IC6 A; 4YQT A; 4PZK A; 4L69 A; 3ONP A; 4YQR A; 2I6D A; 3OII A; 3L8U A; 3AIA A; 4YQO A; 4CNE A; 1UAK A; 4IG6 A; 4MCC A; 1V6Z A; 3IEF A; 4KDZ A; 4YVK A; 2QMM A; 4X3L A; 4MCB A; 5D9F A; 4YPY A; 4YQC A; #chains in the Genus database with same CATH topology 1TO0 A; 4CND A; 4FAK A; 4YQ5 A; 2V3J A; 2V3K A; 4JWF A; 1O6D A; 4JAL A; 4YVJ A; 1ZJR A; 1NS5 A; 3ILK A; 5GM8 A; 1UAL A; 4H3Y A; 4YQ0 A; 1MXI A; 4YVH A; 2EGV A; 1GZ0 A; 4XBO A; 3N4J A; 4YQD A; 2Z0Y A; 3KW2 A; 4MCD A; 4KGN A; 3AI9 X; 2CX8 A; 1NXZ A; 3GYQ A; 1K3R A; 4YQ9 A; 4YQ2 A; 4JAK A; 4YQB A; 1X7P A; 5CO4 A; 3E5Y A; 4JWJ A; 4YQK A; 3AXZ A; 5GMC A; 4YQA A; 3KY7 A; 3BBE A; 4X3M A; 3KTY A; 4YQ3 A; 4YQ4 A; 3NK6 A; 1UAM A; 3BBH A; 4YQ8 A; 4YQG A; 3NK7 A; 4CNF A; 3BBD A; 5GMB A; 1VHK A; 4YQI A; 1P9P A; 4RG1 A; 4YQS A; 4YQN A; 2HA8 A; 2EGW A; 3N4K A; 1UAJ A; 1VH0 A; 4JWG A; 4YQP A; 1V2X A; 4YVG A; 4YPZ A; 1OY5 A; 4YPX A; 4E8B A; 4FMW A; 4YVI A; 4YQL A; 1VHY A; 2QWV A; 4H3Z A; 4YPW A; 4YQ6 A; 1J85 A; 1IPA A; 4YQ1 A; 4CNG A; 5FAI A; 4YQQ A; 3OIJ A; 3QUV A; 4J3C A; 2O3A A; 1Z85 A; 3KNU A; 4YQ7 A; 3DCM X; 2YY8 A; 1X7O A; 4YQJ A; 3O7B A; 3OIN A; 4JWH A; 3IC6 A; 4YQT A; 4PZK A; 4L69 A; 3ONP A; 4YQR A; 2I6D A; 3OII A; 3L8U A; 3AIA A; 4YQO A; 4CNE A; 1UAK A; 4IG6 A; 4MCC A; 1V6Z A; 3IEF A; 4KDZ A; 4YVK A; 2QMM A; 4X3L A; 4MCB A; 5D9F A; 4YPY A; 4YQC A; #chains in the Genus database with same CATH homology 1TO0 A; 4CND A; 4FAK A; 4YQ5 A; 2V3J A; 2V3K A; 4JWF A; 1O6D A; 4JAL A; 4YVJ A; 1ZJR A; 1NS5 A; 3ILK A; 5GM8 A; 1UAL A; 4H3Y A; 4YQ0 A; 1MXI A; 4YVH A; 2EGV A; 1GZ0 A; 4XBO A; 3N4J A; 4YQD A; 2Z0Y A; 3KW2 A; 4MCD A; 4KGN A; 3AI9 X; 2CX8 A; 1NXZ A; 3GYQ A; 1K3R A; 4YQ9 A; 4YQ2 A; 4JAK A; 4YQB A; 1X7P A; 5CO4 A; 3E5Y A; 4JWJ A; 4YQK A; 3AXZ A; 5GMC A; 4YQA A; 3KY7 A; 3BBE A; 4X3M A; 3KTY A; 4YQ3 A; 4YQ4 A; 3NK6 A; 1UAM A; 3BBH A; 4YQ8 A; 4YQG A; 3NK7 A; 4CNF A; 3BBD A; 5GMB A; 1VHK A; 4YQI A; 1P9P A; 4RG1 A; 4YQS A; 4YQN A; 2HA8 A; 2EGW A; 3N4K A; 1UAJ A; 1VH0 A; 4JWG A; 4YQP A; 1V2X A; 4YVG A; 4YPZ A; 1OY5 A; 4YPX A; 4E8B A; 4FMW A; 4YVI A; 4YQL A; 1VHY A; 2QWV A; 4H3Z A; 4YPW A; 4YQ6 A; 1J85 A; 1IPA A; 4YQ1 A; 4CNG A; 5FAI A; 4YQQ A; 3OIJ A; 3QUV A; 4J3C A; 2O3A A; 1Z85 A; 3KNU A; 4YQ7 A; 3DCM X; 2YY8 A; 1X7O A; 4YQJ A; 3O7B A; 3OIN A; 4JWH A; 3IC6 A; 4YQT A; 4PZK A; 4L69 A; 3ONP A; 4YQR A; 2I6D A; 3OII A; 3L8U A; 3AIA A; 4YQO A; 4CNE A; 1UAK A; 4IG6 A; 4MCC A; 1V6Z A; 3IEF A; 4KDZ A; 4YVK A; 2QMM A; 4X3L A; 4MCB A; 5D9F A; 4YPY A; 4YQC 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...
