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 |
67
|
Knots found |
|
sequence length |
246
|
structure length |
246
|
Chain Sequence |
RIPRIYHPISLENQTQCYLSEDAANHVARVLRMTEGEQLELFDGSNHIYPAKIIESNKKSVKVEILGRELADKESHLKIHLGQVISRGERMEFTIQKSVELGVNVITPLWSERCGVKLDAERMDKKIQQWQKIAIAACEQCGRNIVPEIRPLMKLQDWCAENDGALKLNLHPRAHYSIKTLPTIPAGGVRLLIGSEGGLSAQEIAQTEQQGFTEILLGKRVLRTETASLAAISALQICFGDLGEAA
|
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 |
Functional assignment based on structural analysis: crystal structure of the yggJ protein (HI0303) of Haemophilus influenzae reveals an RNA methyltransferase with a deep trefoil knot.
pubmed doi rcsb |
| molecule tags |
Structural genomics, unknown function
|
| source organism |
Haemophilus influenzae
|
| molecule keywords |
Hypothetical protein HI0303
|
| total genus |
67
|
| structure length |
246
|
| sequence length |
246
|
| chains with identical sequence |
B
|
| other databases |
 KnotProt 2.0: K +31
|
| ec nomenclature |
ec
2.1.1.193: 16S rRNA (uracil(1498)-N(3))-methyltransferase. |
| pdb deposition date | 2003-02-11 |
| 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 4YQ2 A; 1TO0 A; 2V3K A; 1J85 A; 4KGN A; 3BBE A; 4YPW A; 4IG6 A; 4RG1 A; 4YVJ A; 3E5Y A; 4KDZ A; 1NXZ A; 3DCM X; 4YQG A; 5CO4 A; 2QWV A; 1X7P A; 4YVK A; 4YQA A; 1UAM A; 4YQ8 A; 3N4J A; 4FAK A; 2HA8 A; 1VH0 A; 3N4K A; 3QUV A; 3NK6 A; 2QMM A; 4YVG A; 1VHK A; 3AXZ A; 1UAK A; 4CNF A; 1O6D A; 2O3A A; 3AI9 X; 2V3J A; 3ONP A; 4YQI A; 4YQQ A; 4JAL A; 4YQC A; 2EGV A; 4YQO A; 3KW2 A; 4CNE A; 4YPZ A; 3KY7 A; 4YVH A; 3BBH A; 4X3L A; 4J3C A; 3GYQ A; 3KTY A; 3IC6 A; 5GMC A; 1ZJR A; 1V2X A; 3BBD A; 4YQJ A; 3NK7 A; 4YQ0 A; 4YPX A; 5GMB A; 4YVI A; 2NWA A; 1GZ0 A; 3AIA A; 4YQ6 A; 4YQ9 A; 3IEF A; 3OII A; 3L8U A; 1VHY A; 1X7O A; 4X3M A; 3KNU A; 2I6D A; 4YQB A; 1V6Z A; 1MXI A; 4YQS A; 5GM8 A; 4YQ3 A; 1NS5 A; 1K3R A; 4L69 A; 4YQ7 A; 4YQK A; 4YQP A; 4CNG A; 4CND A; 4YPY A; 5FAI A; 1Z85 A; 4YQL A; 3ILK A; 4XBO A; 3OIJ A; 4H3Y A; 4YQ1 A; 1UAL A; 4YQ4 A; 3OIN A; 3O7B A; 4MCD A; 4JAK A; 1IPA A; 4YQR A; 2YY8 A; 4YQT A; 4YQ5 A; 4MCC A; 2EGW A; 2Z0Y A; 1UAJ A; 2CX8 A; 4MCB A; 5D9F A; 4YQN A; 4YQD A; 1OY5 A; 4PZK A; 1P9P A; 4H3Z A; 4E8B A; #chains in the Genus database with same CATH topology 3CZB A; 4YQ2 A; 1TO0 A; 5GAE W; 3X1L B; 2V3K A; 3W2W B; 1J85 A; 4KGN A; 3BBE A; 2PIC A; 4YPW A; 4IG6 A; 1EUY A; 1EUQ A; 4RG1 A; 2HZ7 A; 3CF5 S; 4YVJ A; 3DLL S; 3E5Y A; 4FMW A; 4KDZ A; 4IOA S; 1NXZ A; 4P2B A; 3DCM X; 5HL7 S; 4JWH A; 4YQG A; 5CO4 A; 4JXX A; 1X7P A; 2QWV A; 1ZJW A; 4YVK A; 1NYL A; 4YQA A; 1UAM A; 4YQ8 A; 3N4J A; 4WFA S; 4FAK A; 2HA8 A; 1VH0 A; 3N4K A; 3QUV A; 3NK6 A; 3W2V B; 2QMM A; 4JWG A; 1VHK A; 4JWF A; 3AXZ A; 4YVG A; 1UAK A; 3J7Z V; 4CNF A; 1O6D A; 2O3A A; 3AI9 X; 2V3J A; 2PI8 A; 3ONP A; 4YQI A; 4YQQ A; 4JAL A; 4YQC A; 5BNZ A; 2EGV A; 4YQO A; 3KW2 A; 4CNE A; 2G6G A; 4YPZ A; 3KY7 A; 4YVH A; 3BBH A; 4X3L A; 4J3C A; 3GYQ A; 3KTY A; 3IC6 A; 5GMC A; 1DFU P; 1ZJR A; 4IO9 S; 1V2X A; 4JWJ A; 3BBD A; 5GAG W; 4YQJ A; 3NK7 A; 5DM6 S; 4U67 S; 3PIO S; 4YPX A; 4YQ0 A; 3PIP S; 5GMB A; 1EXD A; 1GTS A; 4YVI A; 4UY8 8; 1GTR A; 1D6K A; 2NWA A; 5GAD W; 1GZ0 A; 3AIA A; 4YQ6 A; 4YQ9 A; 1QRS A; 2AE0 X; 2ZJP S; 5JVG S; 3IEF A; 3OII A; 3L8U A; 4H3S A; 1VHY A; 5DM7 S; 1X7O A; 4X3M A; 3KNU A; 2I6D A; 4YQB A; 4WFB S; 1V6Z A; 2G5D A; 5GAH W; 1MXI A; 4H4K A; 3AII A; 5JVH S; 4YQS A; 5GM8 A; 4YQ3 A; 2RE8 A; 1QTQ A; 2GAE A; 1NS5 A; 1K3R A; 4L69 A; 4YQ7 A; 4YQK A; 4YQP A; 1QRU A; 4CNG A; 1FEU A; 4CND A; 5IZN A; 1QRT A; 1Z85 A; 1B75 A; 3ILK A; 4YPY A; 5FAI A; 4YQL A; 2PJJ A; 2ZJR S; 4XBO A; 3OIJ A; 4H3Y A; 4YQ1 A; 1UAL A; 4YQ4 A; 3OIN A; 3O7B A; 4MCD A; 4JAK A; 4IOC S; 1IPA A; 4WCE S; 4YQR A; 2YY8 A; 4YQT A; 4JXZ A; 4YQ5 A; 4MCC A; 2EGW A; 2Z0Y A; 1O0C A; 1UAJ A; 2CX8 A; 4V19 4; 4MCB A; 5D9F A; 4WF9 S; 4JYZ A; 1UDX A; 4YQN A; 4YQD A; 1OY5 A; 2PNW A; 4PZK A; 1P9P A; 4H3Z A; 2RD2 A; 2ZJQ S; 1O0B A; 4WFN S; 4E8B A; #chains in the Genus database with same CATH homology 4YQ2 A; 1TO0 A; 2V3K A; 1J85 A; 4KGN A; 3BBE A; 4YPW A; 4IG6 A; 4RG1 A; 4YVJ A; 3E5Y A; 4FMW A; 4KDZ A; 1NXZ A; 3DCM X; 4JWH A; 4YQG A; 5CO4 A; 2QWV A; 1X7P A; 4YVK A; 4YQA A; 1UAM A; 4YQ8 A; 3N4J A; 4FAK A; 2HA8 A; 1VH0 A; 3N4K A; 3QUV A; 3NK6 A; 2QMM A; 4JWG A; 1VHK A; 4JWF A; 3AXZ A; 4YVG A; 1UAK A; 4CNF A; 1O6D A; 2O3A A; 3AI9 X; 2V3J A; 3ONP A; 4YQI A; 4YQQ A; 4JAL A; 4YQC A; 2EGV A; 4YQO A; 3KW2 A; 4CNE A; 4YPZ A; 3KY7 A; 4YVH A; 3BBH A; 4X3L A; 4J3C A; 3GYQ A; 3KTY A; 3IC6 A; 5GMC A; 1ZJR A; 1V2X A; 4JWJ A; 3BBD A; 4YQJ A; 3NK7 A; 4YQ0 A; 4YPX A; 5GMB A; 4YVI A; 2NWA A; 1GZ0 A; 3AIA A; 4YQ6 A; 4YQ9 A; 3IEF A; 3OII A; 3L8U A; 1VHY A; 1X7O A; 4X3M A; 3KNU A; 2I6D A; 4YQB A; 1V6Z A; 1MXI A; 4YQS A; 5GM8 A; 4YQ3 A; 1NS5 A; 1K3R A; 4L69 A; 4YQ7 A; 4YQK A; 4YQP A; 4CNG A; 4CND A; 4YPY A; 5FAI A; 1Z85 A; 4YQL A; 3ILK A; 4XBO A; 3OIJ A; 4H3Y A; 4YQ1 A; 1UAL A; 4YQ4 A; 3OIN A; 3O7B A; 4MCD A; 4JAK A; 1IPA A; 4YQR A; 2YY8 A; 4YQT A; 4YQ5 A; 4MCC A; 2EGW A; 2Z0Y A; 1UAJ A; 2CX8 A; 4MCB A; 5D9F A; 4YQN A; 4YQD A; 1OY5 A; 4PZK A; 1P9P A; 4H3Z A; 4E8B 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...
