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 |
110
|
sequence length |
369
|
structure length |
369
|
Chain Sequence |
MKNFSIAKSRRLRSTPYTSRIEKQGVTAYTIYNHMLLPAAFGSIEDSYKHLKEHVQIWDVAAERQVEISGKDSAELVQLMTCRDLSKSKIGRCYYCPIIDENGNLVNDPVVLKLDENKWWISIADSDVIFFAKGLASGHKFDVKIVEPVVDIMAIQGPKSFALMEKVFGKKITELKFFGFDYFDFEGTKHLIARSGWSKQGGYEVYVENTQSGQKLYDHLFEVGKEFNVGPGCPNLIERIESALLSYGNDFDNNDNPFECGFDQYVSLDSDINFLGKEKLKEIKLKGPQKKLRGVKIDIKEISLTGSKNIYDENNNVIGELRSACYSPHFQKVIGIAMIKKSHWEASQGFKIQINDNTINGNVCDLPFI
|
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
|
| source organism |
Candidatus pelagibacter ubique
|
| publication title |
Structures of dimethylsulfoniopropionate-dependent demethylase from the marine organism Pelagabacter ubique.
pubmed doi rcsb |
| molecule keywords |
GcvT-like Aminomethyltransferase protein
|
| total genus |
110
|
| structure length |
369
|
| sequence length |
369
|
| chains with identical sequence |
B
|
| ec nomenclature |
ec
2.1.1.269: Dimethylsulfoniopropionate demethylase. |
| pdb deposition date | 2011-08-15 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01571 | GCV_T | Aminomethyltransferase folate-binding domain |
| A | PF08669 | GCV_T_C | Glycine cleavage T-protein C-terminal barrel domain |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 2-Layer Sandwich | Gyrase A; domain 2 | Probable tRNA modification gtpase trme; domain 1 |
#chains in the Genus database with same CATH superfamily 3AD8 C; 3A8I A; 1WOS A; 1XZQ B; 2GAH C; 1PJ7 A; 1X31 C; 3ADA C; 5L46 A; 3TFI A; 4PAA A; 1WOP A; 1WOO A; 3A8K A; 3GEI A; 1WOR A; 1XZP A; 3AD7 C; 1VRQ C; 3A8J A; 1PJ6 A; 3GEE A; 3GIR A; 1XZP B; 1PJ5 A; 3AD9 C; 1VLO A; 3TFH A; 3GEH A; 1WSV A; 3TTG A; 1XZQ A; 2GAG C; 3GSI A; 3TFJ A; 1V5V A; 4P9S A; 1WSR A; 4PAB A; 1YX2 A; #chains in the Genus database with same CATH topology 4KMA A; 3GTJ C; 3A8I A; 3GTJ K; 1Y1W A; 4Q5S A; 3PO2 C; 3PO2 K; 2WAQ D; 4AH6 A; 4O2D A; 5TJ3 A; 3BP3 A; 2NVY A; 4GTL A; 1TWF A; 1Y1W C; 1Y1W K; 2R7Z C; 2R7Z K; 3G4A A; 2YU9 A; 4C45 A; 4LK0 A; 1EFW A; 3L4J A; 1K83 A; 3SZZ A; 3FKI C; 2JA8 C; 4A3J C; 3FKI K; 2JA8 K; 4A3J K; 3FHZ A; 3N3Y A; 3HOX C; 3HOX K; 1ZVU A; 1TWF C; 1TWF K; 2GSN A; 3HOU C; 3HOU K; 2JA7 K; 2YU9 C; 2YU9 K; 3GTQ A; 3S16 K; 4A3D C; 4A3D K; 3RZD C; 1I3Q C; 1PJ6 A; 1IS1 A; 1I3Q K; 3RZD K; 1IBA A; 1PJ5 A; 3T00 A; 2FQO A; 1K83 C; 1K83 K; 3GTP A; 4MQ9 A; 2R93 A; 4A3G C; 4A3G K; 3CAG A; 4J3N A; 1O28 A; 3AD8 C; 1O26 A; 3M3Y C; 4BBS C; 1O24 A; 3M3Y K; 5IYD C; 3GTL A; 4BBS K; 5L46 A; 1VGX A; 3GTP C; 3GTP K; 1Y1V C; 1Y1V K; 1XZP B; 3GTL C; 1BJT A; 4A3L C; 4A3L K; 3T02 A; 4G0W A; 4MEX A; 1JQW A; 3DXJ A; 1IW7 A; 3S1N C; 4LLG A; 3S1N K; 3S0X A; 3ADA C; 3S1M C; 3S1M K; 1IL2 A; 4FM9 A; 4LQY A; 2Y0S L; 4KB2 A; 2E2I A; 2JA5 A; 1F7V A; 1B4A A; 4G0U A; 4C2M C; 4C2M K; 5JVO A; 1SMY A; 2R92 C; 2R92 K; 4KM8 A; 2NVQ C; 2NVQ K; 2GSU A; 1O2B A; 1BDF A; 1HQM A; 2JA5 C; 2JA5 K; 1J6V A; 1SFO A; 3A8K A; 3GEI A; 4C3J C; 1EK8 A; 4C3J K; 4DDQ A; 2JH3 A; 4YG2 A; 1I50 A; 3BP8 C; 2Y0S D; 3AQP A; 4QJV B; 4BXX C; 1R9T A; 4BXX K; 2A6H A; 1INN A; 4P9S A; 4A3F C; 4LR2 A; 1WQF A; 4A3F K; 2VUM A; 1YCL A; 4JK1 A; 1HI9 A; 3HOW C; 2PA8 D; 3HOW K; 5TMF A; 1IE0 A; 1X31 C; 2GSO A; 1I50 C; 4KAW X; 5IYC C; 1I50 K; 5IYC K; 4QIW D; 1KQ4 A; 1WQG A; 2RGR A; 4YFN A; 2B63 A; 1C0A A; 2NVT C; 3M4O C; 2NVT K; 3M4O K; 3FOF A; 4QJV A; 5D4D A; 5C44 C; 1TWG A; 2A68 A; 5C44 K; 3HXA A; 4MEY A; 1IQ0 A; 2D6F C; 2BE5 A; 1TWA A; 4X6A C; 4X6A K; 2B63 C; 2B63 K; 4GTF A; 1DD5 A; 4KB4 A; 4XCH A; 4KDD A; 3TFI A; 1DCO A; 2NVY C; 2NVY K; 3BUE A; 3VA7 A; 3LAP A; 3HOY C; 3HOY K; 5M5X K; 4KAR A; 3AD9 C; 5IP7 C; 5IP7 K; 1O25 A; 2V6T A; 5CHP A; 5JFE A; 1WCM A; 4LK1 A; 1ZXO A; 3GDZ A; 4BLA A; 4BY1 C; 5IOQ A; 4BY1 K; 3S1Q C; 2KWA A; 3S1Q K; 1GE9 A; 4G0V A; 3GTQ C; 3GTQ K; 1F9N A; 3L4K A; 2ZUE A; 4KC6 A; 5IYD K; 3HKZ L; 1XXC A; 1WOP A; 2JA6 A; 1JOE A; 2NVX A; 4RMF A; 3GTM A; 1TWH A; 2R93 C; 3LPX A; 1WQH A; 2R93 K; 5IP9 C; 5IP9 K; 4XSX A; 4Q4Z A; 5FLM C; 5FLM K; 5E68 A; 2A6E A; 1UV7 A; 3MML B; 5HL8 A; 2XCR B; 3GTL K; 4GZY A; 3AH5 A; 2NVX C; 2NVX K; 3GTM C; 4C3H C; 1TWH C; 3GTM K; 4C3H K; 1WSR A; 1TWH K; 3S17 C; 3S17 K; 4GTA A; 4P5A A; 3I4M C; 3HOV C; 3I4M K; 3HOV K; 1JVI A; 1USO A; 2P8T A; 3S2D C; 3S2D K; 4FZB A; 1F7U A; 5EGE A; 3A8J A; 3HKZ D; 2E2H A; 5M3M K; 3CQZ A; 4KMD A; 4XLN A; 3PO3 C; 1USM A; 3PO3 K; 2PA8 L; 4QIW L; 4XLP A; 1WOS A; 1XZQ B; 2O5I A; 4M1X A; 2E2I C; 2E2H C; 2E2I K; 2E2H K; 1YNN A; 3FOE A; 4GTE A; 5C4J C; 5C4J K; 1I6V A; 3T01 A; 2A69 A; 1RU0 A; 2W7V A; 4KN4 A; 3H0G A; 4GFQ A; 3GEH A; 5M3F K; 4AYB L; 1I6H C; 1I6H K; 1ZBS A; 5EGH A; 1ZYR A; 3JST A; 4WIL A; 3S2H K; 3N0C A; 3S2H C; 3ORE A; 3IPJ A; 1SFO C; 4KM9 A; 1SFO K; 1XXB A; 1XZQ A; 2ZUF A; 1O2F B; 4OIR A; 3S15 C; 4PAA A; 2P5M A; 3I4N C; 3AD7 C; 3GTJ A; 1R9T C; 1R9T K; 3ERE D; 3S1R C; 4WJ4 A; 4GTC A; 3TFH A; 2EBB A; 2VUM C; 2VUM K; 3S14 C; 3TTG A; 3S14 K; 1L0W A; 3H3V L; 1TWC A; 2XCQ A; 2FQT A; 1YX2 A; 4AYB D; 2R7Z A; 2V6S A; 4KMH A; 4A3M C; 5IOR A; 4A3M K; 1WOR A; 5C3E C; 5C3E K; 1TWG C; 1J6W A; 1TWG K; 1TWC C; 1XPP A; 3FKI A; 1TWC K; 5IYB C; 5IYB K; 1TWA C; 1YNJ A; 1TWA K; 1EI6 A; 2JA7 A; 4BBR C; 4BBR K; 4A3C C; 4A3C K; 3GSI A; 1I3Q A; 2CFA B; 3AQO A; 2V6U A; 3QX3 A; 3H3V D; 1B4B A; 3GTK A; 2Y3P A; 2JA7 C; 4ILD A; 1VH2 A; 3S16 C; 2PMZ L; 1WCM C; 1XXA A; 4G7H A; 1WCM K; 1DCH A; 4C3I C; 4C3I K; 4KN7 A; 3GIR A; 3V4G A; 4G7O A; 5FJ8 K; 1Y1V A; 1AB4 A; 2CFA A; 2WB1 L; 3GTK C; 3GTK K; 2JA6 C; 1O29 A; 2JA6 K; 4PAB A; 4A3E C; 4A3E K; 1ISE A; 2GAH C; 4YFX A; 1BGW A; 1VJE A; 4GT9 A; 1WOO A; 1J98 A; 3GTG A; 1G51 A; 3N0B A; 1BS2 A; 3HOZ C; 3HOZ K; 1EH1 A; 4KAS A; 4ZH4 A; 1VLO A; 1WSV A; 2PMZ D; 1EQR A; 5TMC A; 2GAG C; 4LJZ A; 3EQL A; 2O5J A; 2E2J C; 2E2J K; 3GTG C; 3GTG K; 1ZQ1 C; 3GTO A; 2R92 A; 2WB1 D; 2RH6 A; 1PJ7 A; 4KMU A; 1WIH A; 2PPB A; 4NOI A; 3NUH A; 2ZFZ A; 3CQZ C; 3CQZ K; 3OEP A; 5CJ9 A; 4BY7 C; 4WJ3 M; 4BY7 K; 3K7A C; 1XZP A; 5IOT A; 3K7A K; 4P5B A; 4LOW A; 1VRQ C; 1J6X A; 1DCP A; 4Y7N C; 4Y7N K; 5IOS A; 4GTB A; 3GTO C; 3GTO K; 5M5W K; 4BKW A; 4A93 C; 4G7Z A; 4A93 K; 4A3B C; 3SZY A; 4A3B K; 1O27 A; 3TFJ A; 1V5V A; 4OIP A; 4A3I C; 4A3I K; 2WAQ L; 1F93 A; 4Y52 C; 4Y52 K; 4YFK A; 4OIN A; 3H0G C; 3H0G K; 5C4X C; 5C4X K; 3S15 K; 3LAJ A; 4GTD A; 3I4N K; 3WOD A; 4BLB A; 4OIQ A; 2PHC B; 3OPF A; 2XCO A; 3Q3Q A; 4KAT A; 3GEE A; 3S1R K; 5M5Y K; 4OIO A; 4XSZ A; 1O2A A; 3G4C A; 3RZO C; 3RZO K; 4A3K C; 4A3K K; 2CW0 A; #chains in the Genus database with same CATH homology 3AD8 C; 3A8I A; 1WOS A; 1XZQ B; 2GAH C; 1PJ7 A; 1X31 C; 3ADA C; 5L46 A; 3TFI A; 4PAA A; 1WOP A; 1WOO A; 3A8K A; 3GEI A; 1WOR A; 1XZP A; 3AD7 C; 1VRQ C; 3A8J A; 1PJ6 A; 3GEE A; 3GIR A; 1XZP B; 1PJ5 A; 3AD9 C; 1VLO A; 3TFH A; 3GEH A; 1WSV A; 3TTG A; 1XZQ A; 2GAG C; 3GSI A; 3TFJ A; 1V5V A; 4P9S A; 1WSR A; 4PAB A; 1YX2 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...
