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 |
70
|
Knots found |
|
sequence length |
245
|
structure length |
240
|
Chain Sequence |
LPLFYAPDIEQSDRLPDDEAGHILRVLRMQAGDRLRLTDGRGSFFDAVIETADRKSCYVSVCGQESWQKPWRDRITIAIAPTKQSERMEWMLEKLVEIGVDEVVFIESEHSERRRIKAERLERIAISAMKQSLKASFPVIRVNIPIQTVIADTPKAAVRLIAYVDEAVRGRGYPSDFYHVGQDVLILIGPEGDFSPSEVESALLAGFAPVSLGESRLRTETAGLVACQWIHTLQACYRIG
|
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.
| molecule tags |
Transferase
|
| molecule keywords |
Probable r-RNA methyltransferase
|
| publication title |
Crystal structure of probable rRNA-methyltransferase from Porphyromonas gingivalis
rcsb |
| source organism |
Porphyromonas gingivalis atcc 33277
|
| total genus |
70
|
| structure length |
240
|
| sequence length |
245
|
| chains with identical sequence |
B
|
| other databases |
 KnotProt 2.0: K +31
|
| ec nomenclature | |
| pdb deposition date | 2009-11-30 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF04452 | Methyltrans_RNA | RNA methyltransferase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Beta | Beta Barrel | Ribosomal Protein L25; Chain P | Hypothetical PUA domain-like; domain 1 | ||
| Alpha Beta | 3-Layer(aba) Sandwich | Alpha/beta knot | Alpha/beta knot |
#chains in the Genus database with same CATH superfamily 1Z85 A; 4YQ7 A; 3KTY A; 3KY7 A; 3O7B A; 4PZK A; 3L8U A; 4YQ6 A; 4MCD A; 4L69 A; 1NS5 A; 4CNE A; 4YQ5 A; 3GYQ A; 5GMC A; 2NWA A; 5GMB A; 4YQ8 A; 1ZJR A; 3KW2 A; 1J85 A; 4YPZ A; 4YQB A; 3ILK A; 3N4K A; 1K3R A; 1P9P A; 4YQS A; 4YVI A; 3E5Y A; 3NK6 A; 4X3L A; 3OIJ A; 3OIN A; 2QWV A; 2V3J A; 4FAK A; 4JAK A; 4YQC A; 4YQI A; 4H3Z A; 5D9F A; 4YQ4 A; 4H3Y A; 4YVJ A; 4YQD A; 4YQ9 A; 4YQA A; 4KGN A; 4YQ3 A; 4JAL A; 4YVG A; 4YQT A; 1IPA A; 3BBD A; 3KNU A; 3AIA A; 1VH0 A; 4X3M A; 2CX8 A; 3N4J A; 3NK7 A; 3OII A; 4YQK A; 4YQO A; 5CO4 A; 4XBO A; 1TO0 A; 4YPX A; 4YPW A; 4CNF A; 3QUV A; 4CND A; 1V2X A; 4YQP A; 1X7O A; 3DCM X; 4IG6 A; 5FAI A; 4J3C A; 1UAJ A; 4MCB A; 3BBE A; 2EGV A; 2Z0Y A; 1MXI A; 2YY8 A; 3AI9 X; 1X7P A; 2HA8 A; 1UAL A; 4YQ0 A; 1OY5 A; 3IC6 A; 4KDZ A; 1O6D A; 4YQN A; 1VHY A; 4YPY A; 4RG1 A; 1UAK A; 4YVH A; 4YQR A; 5GM8 A; 2O3A A; 1UAM A; 3AXZ A; 3ONP A; 2I6D A; 4YQJ A; 2QMM A; 4CNG A; 4YQ2 A; 1GZ0 A; 1NXZ A; 4YVK A; 1V6Z A; 4YQ1 A; 2V3K A; 3IEF A; 4YQL A; 4MCC A; 4YQG A; 3BBH A; 2EGW A; 1VHK A; 4E8B A; 4YQQ A; #chains in the Genus database with same CATH topology 1Z85 A; 2PJJ A; 4YQ7 A; 2PNW A; 3KTY A; 1EUQ A; 3KY7 A; 1D6K A; 3CZB A; 3O7B A; 1NYL A; 4PZK A; 3L8U A; 4YQ6 A; 2ZJP S; 4MCD A; 3AII A; 4L69 A; 1ZJW A; 2GAE A; 4JYZ A; 1NS5 A; 4CNE A; 1EXD A; 1QTQ A; 1O0B A; 4WF9 S; 4YQ5 A; 4IOC S; 3GYQ A; 5DM7 S; 3J7Z V; 4P2B A; 5GMC A; 2HZ7 A; 2NWA A; 5GMB A; 4YQ8 A; 1ZJR A; 3KW2 A; 4WFB S; 4JWG A; 1J85 A; 4YPZ A; 4IOA S; 4YQB A; 3ILK A; 5GAE W; 3PIP S; 3X1L B; 1K3R A; 1P9P A; 3N4K A; 4YQS A; 4YVI A; 3E5Y A; 3NK6 A; 4X3L A; 3OIJ A; 3CF5 S; 2QWV A; 2V3J A; 1QRT A; 5JVG S; 4FAK A; 3OIN A; 4JAK A; 4YQC A; 4UY8 8; 4YQI A; 1B75 A; 4H3Z A; 5GAG W; 5D9F A; 4YQ4 A; 4H3Y A; 5GAD W; 4YVJ A; 1DFU P; 4YQD A; 1FEU A; 4YQ9 A; 4V19 4; 4YQA A; 2G5D A; 4KGN A; 4YQ3 A; 4JAL A; 4YVG A; 4YQT A; 1IPA A; 3BBD A; 3KNU A; 3AIA A; 5IZN A; 1VH0 A; 2PI8 A; 4X3M A; 2CX8 A; 3N4J A; 3NK7 A; 3OII A; 4YQK A; 4YQO A; 2G6G A; 5CO4 A; 4WFN S; 4JXZ A; 4XBO A; 3W2V B; 1TO0 A; 4YPX A; 4YPW A; 5BNZ A; 4U67 S; 4CNF A; 3QUV A; 4CND A; 3DLL S; 1GTS A; 5JVH S; 1V2X A; 4YQP A; 1X7O A; 3DCM X; 4IG6 A; 5FAI A; 4J3C A; 1UAJ A; 4MCB A; 3BBE A; 2EGV A; 1QRS A; 2Z0Y A; 4WFA S; 1MXI A; 2YY8 A; 4H3S A; 1GTR A; 2AE0 X; 4WCE S; 3AI9 X; 1X7P A; 1UDX A; 2ZJQ S; 2HA8 A; 1UAL A; 4YQ0 A; 5GAH W; 1OY5 A; 3IC6 A; 3PIO S; 2ZJR S; 4KDZ A; 1O6D A; 4YQN A; 1VHY A; 4YPY A; 2PIC A; 4JXX A; 2RE8 A; 1O0C A; 4JWJ A; 4RG1 A; 3W2W B; 1UAK A; 4YVH A; 4YQR A; 5GM8 A; 2O3A A; 4IO9 S; 1UAM A; 3AXZ A; 3ONP A; 2I6D A; 4YQJ A; 2QMM A; 5HL7 S; 4CNG A; 1EUY A; 1GZ0 A; 4YQ2 A; 1NXZ A; 4YVK A; 2RD2 A; 1V6Z A; 4YQ1 A; 2V3K A; 4H4K A; 4FMW A; 3IEF A; 4YQL A; 4MCC A; 1QRU A; 4JWH A; 4JWF A; 5DM6 S; 4YQG A; 3BBH A; 2EGW A; 1VHK A; 4E8B A; 4YQQ A; #chains in the Genus database with same CATH homology 1Z85 A; 4YQ7 A; 3KTY A; 3KY7 A; 3O7B A; 4PZK A; 3L8U A; 4YQ6 A; 4MCD A; 4L69 A; 1NS5 A; 4CNE A; 4YQ5 A; 3GYQ A; 5GMC A; 2NWA A; 5GMB A; 4YQ8 A; 1ZJR A; 3KW2 A; 4JWG A; 1J85 A; 4YPZ A; 4YQB A; 3ILK A; 3N4K A; 1K3R A; 1P9P A; 4YQS A; 4YVI A; 3E5Y A; 3NK6 A; 4X3L A; 3OIJ A; 3OIN A; 2QWV A; 2V3J A; 4FAK A; 4JAK A; 4YQC A; 4YQI A; 4H3Z A; 5D9F A; 4YQ4 A; 4H3Y A; 4YVJ A; 4YQD A; 4YQ9 A; 4YQA A; 4KGN A; 4YQ3 A; 4JAL A; 4YVG A; 4YQT A; 1IPA A; 3BBD A; 3KNU A; 3AIA A; 1VH0 A; 4X3M A; 2CX8 A; 3N4J A; 3NK7 A; 3OII A; 4YQK A; 4YQO A; 5CO4 A; 4XBO A; 1TO0 A; 4YPX A; 4YPW A; 4CNF A; 3QUV A; 4CND A; 1V2X A; 4YQP A; 1X7O A; 3DCM X; 4IG6 A; 5FAI A; 4J3C A; 1UAJ A; 4MCB A; 3BBE A; 2EGV A; 2Z0Y A; 1MXI A; 2YY8 A; 3AI9 X; 1X7P A; 2HA8 A; 1UAL A; 4YQ0 A; 1OY5 A; 3IC6 A; 4KDZ A; 1O6D A; 4YQN A; 1VHY A; 4YPY A; 4JWJ A; 4RG1 A; 1UAK A; 4YVH A; 4YQR A; 5GM8 A; 2O3A A; 1UAM A; 3AXZ A; 3ONP A; 2I6D A; 4YQJ A; 2QMM A; 4CNG A; 4YQ2 A; 1GZ0 A; 1NXZ A; 4YVK A; 1V6Z A; 4YQ1 A; 2V3K A; 4FMW A; 3IEF A; 4YQL A; 4MCC A; 4JWH A; 4JWF A; 4YQG A; 3BBH A; 2EGW A; 1VHK A; 4E8B A; 4YQQ 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...
