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 |
130
|
Knots found |
|
sequence length |
413
|
structure length |
413
|
Chain Sequence |
MSKISVTVNGRRYPWPRVPAIAVCLDGCEPAYLDAAIDAGLMPALKRIKERGAVRLAHSVIPSFTNPNNLSIATGSPPAVHGICGNYLYEPSTGEEVMMNDPKFLRAPTIFQAFYDAGARVAVVTAKDKLRALLGKGLRFDEGRAVCFSSEKSDKATRAEHGIDNASAWLGRPVPEVYSAALSEFVFAAGVKLLREFRPDIMYLTTTDYVQHKYAPGVPEANSFYEMFDRYLAELDGLGAAIVVTADHGMKPKHKADGSPDVIYVQDLLDEWLGKDAARVILPITDPYVVHHGALGSFATAYLPDGCDRSEIMARLKAIQGVDVVLGREEACRRFELPEDRIGDIVLVSSENKTLGTSEHRHDLAALDEPLRSHGGLTEQEVPFIVNRVLPELPNAPRLRNFDAFFYAVTAAA
|
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 and mechanistic insights into C-p bond hydrolysis by phosphonoacetate hydrolase.
pubmed doi rcsb |
| molecule tags |
Hydrolase
|
| source organism |
Sinorhizobium meliloti
|
| molecule keywords |
phosphonoacetate hydrolase
|
| total genus |
130
|
| structure length |
413
|
| sequence length |
413
|
| other databases |
 KnotProt 2.0: S +31
|
| ec nomenclature |
ec
3.6.1.9: Nucleotide diphosphatase. |
| pdb deposition date | 2011-07-19 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01663 | Phosphodiest | Type I phosphodiesterase / nucleotide pyrophosphatase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 2-Layer Sandwich | Gyrase A; domain 2 | Domain 2, Phosphonoacetate Hydrolase | ||
| Alpha Beta | 3-Layer(aba) Sandwich | Alkaline Phosphatase, subunit A | Alkaline Phosphatase, subunit A |
#chains in the Genus database with same CATH superfamily 3A52 A; 1HDH A; 3M8Z A; 2D1G A; 3NKN A; 5KXA A; 1AJA A; 1ELX A; 4UPK A; 1ZED A; 4UOP A; 2W5W A; 3E2D A; 1E1Z P; 1B8J A; 4MIV A; 3UN2 A; 4B56 A; 4ZGA A; 1ED8 A; 1SHQ A; 1Y6V A; 3LXQ A; 1ALK A; 4KM4 A; 1Y7A A; 1AJD A; 1ANJ A; 4FDI A; 4LR7 A; 4GTW A; 3NKR A; 2W5T A; 3DPC A; 1KHN A; 1ALI A; 1EJJ A; 1ZEF A; 4GTY A; 5IJQ A; 3MK0 A; 3NVL A; 4LRF A; 3MK1 A; 5LIA A; 4LRB A; 2VQR A; 4QAX A; 5LQQ A; 3WAV A; 4CXS A; 2GLQ A; 2ANH A; 3MK2 A; 4LQY A; 3OT9 A; 4TN0 A; 5DLT A; 4CYS A; 3UO0 A; 1EW2 A; 3TWZ A; 4FDJ A; 3WAY A; 5L0B A; 2W5Q A; 3NKO A; 2W8S A; 4GTX A; 3TX0 A; 1HJK A; 4UPH A; 1O99 A; 3CMR A; 1AJC A; 3SZY A; 4ZG7 A; 1ALH A; 2QZU A; 3DYC A; 4KAY A; 3M8W A; 3T01 A; 2W5V A; 3UN5 A; 3WBH A; 5L0K A; 2W5X A; 4KJD A; 1E2S P; 1EQJ A; 1KHL A; 5L0E A; 2W5R A; 5GOV A; 1O98 A; 3IGY B; 1ELY A; 3T00 A; 2IUC A; 3IGZ B; 3SZZ A; 1FSU A; 4N7T A; 2IUC B; 3IDD A; 1SHN A; 4UOR A; 2W5S A; 2GSO A; 2XRG A; 4KAV A; 4CXK A; 3NKP A; 4YR1 A; 4ZG6 A; 4LRA A; 3B5Q A; 5INH A; 4MY4 A; 1KH5 A; 1KH7 A; 4ZG9 A; 1P49 A; 2G9Y A; 1KHJ A; 4CYR A; 1AJB A; 4LRE A; 2X98 A; 5TJ3 A; 1K7H A; 1KHK A; 3KD8 A; 1KH9 A; 4MHX A; 2RH6 A; 4LRD A; 4LR9 A; 4NWJ A; 1ANI A; 5EGH A; 2ZKT A; 1ED9 A; 4LR8 A; 4UPI A; 3WAW A; 5EGE A; 1URA A; 4KJG A; 3ED4 A; 3T02 A; 1KH4 A; 4UPL A; 3NKQ A; 4LRC A; 4UOO A; 3UN3 A; 3BDH A; 5GRR A; 1ALJ A; 1EW9 A; 1URB A; 4GTZ A; 5DLV A; 1E33 P; 4NWX A; 3NKM A; 5C66 A; 1HQA A; 1EI6 A; 2GSU A; 3Q3Q A; 2XR9 A; 1N2K A; 4LR2 A; 1AUK A; 1ZEB A; 2GSN A; 3M8Y A; 3WAX A; 2IFY A; 2W8D A; 3UNY A; 5LRN A; 1N2L A; 3BDF A; 5HRT A; 4CXU A; 5LRM A; 3BDG A; 5IJS A; 5DLW A; 3M7V A; 1E3C P; 1ELZ A; 2GA3 A; 5K4P A; 3BDG B; 3TG0 A; 1EW8 A; 5AJ9 A; #chains in the Genus database with same CATH topology 2JA5 K; 3BUE A; 2E2J K; 2E2H K; 4A3F K; 2D1G A; 4C45 A; 4BY1 C; 5KXA A; 2R93 K; 1TWF K; 4X6A K; 4B56 A; 4ZGA A; 1SFO A; 2NVY K; 4A93 K; 4QIW L; 4PAB A; 1SHQ A; 4KM4 A; 3S2D K; 4YFN A; 3OPF A; 1ZXO A; 4GTW A; 4KMA A; 2JA6 K; 4YG2 A; 1EJJ A; 5FJ8 K; 4GTB A; 1KHN A; 2R7Z A; 1USM A; 3MK0 A; 3NVL A; 4LRF A; 1WOR A; 5IP9 K; 2R92 A; 4TN0 A; 1JOE A; 1ZVU A; 3S14 C; 4CYS A; 1DCP A; 3TFJ A; 3N3Y A; 1XZP A; 5D4D A; 4FDJ A; 4A3B K; 1F7V A; 3HOY K; 3GTQ C; 3NKO A; 3QX3 A; 1HJK A; 1I6H K; 4ZG7 A; 1UV7 A; 2PA8 D; 4KAY A; 2QZU A; 2NVQ K; 4ZH4 A; 3M8W A; 4QJV A; 2W5V A; 3UN5 A; 1Y1W C; 5L0K A; 3A8J A; 4A3I C; 2A68 A; 4OIN A; 4C2M K; 2PMZ D; 3S1N C; 3HOX K; 2JH3 A; 4KAW X; 1B4A A; 3N0B A; 4N7T A; 1J98 A; 1SFO C; 2GSO A; 2NVX K; 4A3C K; 3WOD A; 3B5Q A; 5INH A; 2JA5 A; 4MY4 A; 3HOZ K; 2E2H A; 4ZG9 A; 2V6S A; 2R93 A; 1TWF A; 3GTQ K; 4CYR A; 3DXJ A; 4G7H A; 1XXA A; 2R7Z C; 1KHK A; 3KD8 A; 5C4X K; 4Y7N C; 3AH5 A; 4LR9 A; 1ANI A; 2ZKT A; 3GSI A; 5C3E K; 4A3I K; 3EQL A; 3HKZ D; 1R9T K; 2R92 C; 3L4K A; 2JA6 A; 3K7A K; 4GT9 A; 3ED4 A; 3T02 A; 1KH4 A; 4UPL A; 3NKQ A; 1WSR A; 2GAH C; 3ORE A; 2Y3P A; 1TWC C; 2A6H A; 1URB A; 3NKM A; 1EI6 A; 3OEP A; 3A8K A; 3VA7 A; 4GTE A; 3Q3Q A; 3S0X A; 3I4M C; 1F7U A; 1XXB A; 1DD5 A; 2WB1 D; 1RU0 A; 1K83 K; 5LRN A; 1N2L A; 2R7Z K; 1B4B A; 4Y7N K; 3BDG A; 3S1Q K; 1WQG A; 4JK1 A; 4FM9 A; 1BJT A; 4A3K C; 4OIQ A; 1I3Q C; 2ZUF A; 1E3C P; 2R92 K; 3BP3 A; 4KB2 A; 1F9N A; 5IYB C; 2GA3 A; 3RZO C; 3GTL K; 3TG0 A; 5LQQ A; 4KAT A; 2JA5 C; 1ZQ1 C; 4A3F C; 2E2H C; 1HQM A; 4RMF A; 1HDH A; 4GTC A; 3A52 A; 3NKN A; 2R93 C; 1TWF C; 3LPX A; 1TWC K; 4X6A C; 4UPK A; 2W5W A; 1JVI A; 3UN2 A; 2NVX A; 3FKI K; 2V6T A; 4A93 C; 1G51 A; 1ALK A; 5IYD C; 2WAQ D; 4FDI A; 5IP7 C; 4J3N A; 3NKR A; 3GTO K; 3DPC A; 1O2A A; 3GEE A; 1I3Q K; 1WQH A; 3WAV A; 1WCM C; 2ANH A; 5IP9 C; 4BLB A; 1R9T A; 2O5I A; 4A3L K; 3LAP A; 5DLT A; 4P5A A; 4KMU A; 3I4N C; 4A3B C; 3IPJ A; 3AD9 C; 2B63 K; 3HOY C; 2O5J A; 1WIH A; 3GTJ K; 1WQF A; 1IW7 A; 5FLM K; 3TX0 A; 1I6H C; 2PHC B; 1O99 A; 3GTM C; 5IYD K; 2NVQ C; 4A3D K; 3WBH A; 2W5X A; 5IP7 K; 4KM9 A; 1EQJ A; 1KHL A; 5L0E A; 1K83 A; 3RZD C; 4C2M C; 1ELY A; 3T00 A; 3HOX C; 3IGZ B; 4Q4Z A; 2NVT K; 4KC6 A; 1WCM K; 1HI9 A; 5HL8 A; 2IUC B; 3IDD A; 2CFA A; 2NVX C; 1BDF A; 4A3C C; 4KMH A; 2W5S A; 4KAV A; 3GTL A; 4G0W A; 1WOP A; 4P9S A; 4FZB A; 2RGR A; 3H3V L; 3HOZ C; 3I4N K; 1J6W A; 4A3G C; 1KH5 A; 1P49 A; 1TWC A; 2Y0S L; 1AB4 A; 4YFK A; 1YNN A; 1AJB A; 3FKI A; 2A69 A; 1BS2 A; 3AD7 C; 3GTM K; 5C4X C; 1KH9 A; 5EGH A; 4UPI A; 5C3E C; 2P8T A; 1R9T C; 4KJG A; 4DDQ A; 3RZD K; 3K7A C; 3GTO A; 1VJE A; 3PO3 K; 2A6E A; 5M5X K; 3GTK K; 4GTF A; 4GZY A; 4ILD A; 1EW9 A; 1WOO A; 1PJ6 A; 1I3Q A; 4GTZ A; 1E33 P; 3HOW C; 4A3G K; 4BBS K; 4G7Z A; 2XCO A; 3FOE A; 4AYB L; 4A3J K; 2B63 A; 1XZQ B; 1AUK A; 3GIR A; 3V4G A; 2GSN A; 3GTJ A; 1ZEB A; 1K83 C; 3S1M C; 3G4C A; 2IFY A; 1VGX A; 1IL2 A; 3S1Q C; 1JQW A; 1WSV A; 1DCH A; 5DLW A; 3M7V A; 1ELZ A; 2VUM K; 4GFQ A; 4C3I K; 4QIW D; 3S15 K; 1I6V A; 3GTL C; 4G0V A; 1I50 A; 3GTP K; 3HXA A; 1AJA A; 1ELX A; 1WCM A; 1INN A; 1ZED A; 5C44 C; 4UOP A; 3E2D A; 3JST A; 1B8J A; 4O2D A; 1E1Z P; 1Y1V C; 3FKI C; 4GTD A; 1ED8 A; 3HOW K; 3LXQ A; 2D6F C; 3S2H K; 1IS1 A; 3A8I A; 1AJD A; 1ANJ A; 1O28 A; 5IOS A; 3S1M K; 3GTO C; 4XCH A; 1IQ0 A; 4NOI A; 1VRQ C; 3GTM A; 1USO A; 1ZEF A; 5IJQ A; 3MK1 A; 2VQR A; 4QAX A; 4XLP A; 4LLG A; 3ERE D; 4Q5S A; 4CXS A; 4P5B A; 5JFE A; 4A3L C; 3OT9 A; 3M3Y K; 3PO2 K; 4WJ4 A; 3UO0 A; 4BXX K; 4OIR A; 3GTK A; 1EW2 A; 1EQR A; 2B63 C; 1SMY A; 1XPP A; 3AQP A; 3WAY A; 3GTJ C; 5C44 K; 1O29 A; 5FLM C; 1XXC A; 2W8S A; 4GTX A; 1Y1V K; 1TWA K; 3CQZ A; 3CMR A; 1IE0 A; 3SZY A; 4A3D C; 5TMF A; 1ALH A; 1X31 C; 4KB4 A; 2JA7 C; 3DYC A; 3T01 A; 4C3J C; 4KJD A; 1E2S P; 1V5V A; 1ZYR A; 2W5R A; 5GOV A; 2FQT A; 1O98 A; 2YU9 K; 2ZFZ A; 4KMD A; 1C0A A; 4OIO A; 1I50 C; 5IYC C; 2NVT C; 2PA8 L; 1FSU A; 2VUM A; 5C4J C; 3FOF A; 3NUH A; 4Y52 C; 2EBB A; 2W7V A; 1SHN A; 1XZQ A; 4C3H C; 2XRG A; 1ISE A; 4YR1 A; 4ZG6 A; 1O2B A; 5IOR A; 3HOU K; 3GTG A; 2PMZ L; 2CW0 A; 3N0C A; 2ZUE A; 3GTP A; 2BE5 A; 4G7O A; 2E2I A; 2G9Y A; 1KHJ A; 2JA8 C; 4LRE A; 4LK1 A; 4MQ9 A; 5TJ3 A; 1K7H A; 1TWH K; 2JA7 K; 2RH6 A; 3TFH A; 4C3J K; 1EFW A; 3HOV C; 4XSZ A; 3S17 C; 1URA A; 4BLA A; 4G0U A; 3PO3 C; 1PJ7 A; 4LRC A; 3GTK C; 1I50 K; 3UN3 A; 5IYC K; 3BDH A; 1J6V A; 5GRR A; 4XLN A; 2P5M A; 4KAR A; 3S16 K; 4KN7 A; 5C4J K; 4Y52 K; 4NWX A; 2XCR B; 4C3H K; 3CQZ C; 4KM8 A; 5C66 A; 3ADA C; 3HKZ L; 1GE9 A; 4BBS C; 2GSU A; 4MEX A; 4A3J C; 1KQ4 A; 4LR2 A; 3GEI A; 2JA8 K; 3WAX A; 1Y1V A; 1TWA A; 2W8D A; 3UNY A; 5HRT A; 3BDF A; 3G4A A; 5IOQ A; 4GTL A; 4WIL A; 5M3F K; 5IOT A; 1O27 A; 4A3E K; 4A3M K; 1TWG C; 2VUM C; 3HOV K; 4C3I C; 3S17 K; 3H0G K; 3S15 C; 4KDD A; 5K4P A; 1ZBS A; 1O24 A; 2YU9 A; 3BDG B; 2WB1 L; 3TFI A; 3TTG A; 5M5Y K; 3GTG C; 3M8Z A; 1F93 A; 2E2I C; 3GTP C; 2PPB A; 4BY1 K; 3M4O C; 3LAJ A; 1YNJ A; 4OIP A; 4MIV A; 3CQZ K; 4MEY A; 1Y6V A; 1BGW A; 1WOS A; 1Y7A A; 3S2H C; 4LR7 A; 1DCO A; 1J6X A; 2W5T A; 1ALI A; 4BKW A; 1TWH A; 4GTY A; 4AH6 A; 3BP8 C; 2JA7 A; 5LIA A; 4LRB A; 1TWG K; 4BY7 C; 2GLQ A; 2WAQ L; 3MK2 A; 4LQY A; 3M3Y C; 3PO2 C; 3S14 K; 4BXX C; 5L46 A; 3GTG K; 2E2I K; 3TWZ A; 3GDZ A; 3M4O K; 5L0B A; 2GAG C; 2W5Q A; 5M5W K; 1TWA C; 1L0W A; 3AD8 C; 4UPH A; 2NVY A; 1AJC A; 5M3M K; 4KAS A; 4LK0 A; 1Y1W K; 4BBR C; 3H3V D; 2YU9 C; 3IGY B; 5TMC A; 5CHP A; 2IUC A; 2Y0S D; 3S1N K; 3GEH A; 3FHZ A; 1YCL A; 4WJ3 M; 3SZZ A; 4BY7 K; 3H0G A; 4UOR A; 1SFO K; 4CXK A; 3NKP A; 4PAA A; 4LRA A; 3S1R C; 3HOU C; 1EH1 A; 3L4J A; 1KH7 A; 2CFA B; 3CAG A; 2V6U A; 1XZP B; 2X98 A; 1TWH C; 1YX2 A; 4MHX A; 4NWJ A; 4LRD A; 4YFX A; 1EK8 A; 4LOW A; 1IBA A; 1ED9 A; 4LR8 A; 3WAW A; 4BBR K; 5EGE A; 4LJZ A; 4GTA A; 1VH2 A; 4QJV B; 5E68 A; 1PJ5 A; 4AYB D; 1O26 A; 3MML B; 4UOO A; 2E2J C; 3S16 C; 1ALJ A; 1TWG A; 5DLV A; 5JVO A; 1O25 A; 4XSX A; 1HQA A; 2NVY C; 3S1R K; 1O2F B; 3S2D C; 2XR9 A; 1N2K A; 3I4M K; 3GTQ A; 3M8Y A; 2XCQ A; 2JA6 C; 2FQO A; 4CXU A; 5LRM A; 4KN4 A; 4M1X A; 5IJS A; 4A3E C; 1VLO A; 4A3M C; 2KWA A; 1Y1W A; 3AQO A; 3H0G C; 4A3K K; 5IYB K; 3RZO K; 1EW8 A; 5AJ9 A; 5CJ9 A; #chains in the Genus database with same CATH homology 3A52 A; 1HDH A; 3M8Z A; 2D1G A; 3NKN A; 5KXA A; 1AJA A; 1ELX A; 4UPK A; 1ZED A; 4UOP A; 2W5W A; 3E2D A; 1E1Z P; 1B8J A; 4MIV A; 3UN2 A; 4B56 A; 4ZGA A; 1ED8 A; 1SHQ A; 1Y6V A; 3LXQ A; 1ALK A; 4KM4 A; 1Y7A A; 1AJD A; 1ANJ A; 4FDI A; 4LR7 A; 4GTW A; 3NKR A; 2W5T A; 3DPC A; 1KHN A; 1ALI A; 1EJJ A; 1ZEF A; 4GTY A; 5IJQ A; 3MK0 A; 3NVL A; 4LRF A; 3MK1 A; 5LIA A; 4LRB A; 2VQR A; 4QAX A; 5LQQ A; 3WAV A; 4CXS A; 2GLQ A; 2ANH A; 3MK2 A; 4LQY A; 3OT9 A; 4TN0 A; 5DLT A; 4CYS A; 3UO0 A; 1EW2 A; 3TWZ A; 4FDJ A; 3WAY A; 5L0B A; 2W5Q A; 3NKO A; 2W8S A; 4GTX A; 3TX0 A; 1HJK A; 4UPH A; 1O99 A; 3CMR A; 1AJC A; 3SZY A; 4ZG7 A; 1ALH A; 2QZU A; 3DYC A; 4KAY A; 3M8W A; 3T01 A; 2W5V A; 3UN5 A; 3WBH A; 5L0K A; 2W5X A; 4KJD A; 1E2S P; 1EQJ A; 1KHL A; 5L0E A; 2W5R A; 5GOV A; 1O98 A; 3IGY B; 1ELY A; 3T00 A; 2IUC A; 3IGZ B; 3SZZ A; 1FSU A; 4N7T A; 2IUC B; 3IDD A; 1SHN A; 4UOR A; 2W5S A; 2GSO A; 2XRG A; 4KAV A; 4CXK A; 3NKP A; 4YR1 A; 4ZG6 A; 4LRA A; 3B5Q A; 5INH A; 4MY4 A; 1KH5 A; 1KH7 A; 4ZG9 A; 1P49 A; 2G9Y A; 1KHJ A; 4CYR A; 1AJB A; 4LRE A; 2X98 A; 5TJ3 A; 1K7H A; 1KHK A; 3KD8 A; 1KH9 A; 4MHX A; 2RH6 A; 4LRD A; 4LR9 A; 4NWJ A; 1ANI A; 5EGH A; 2ZKT A; 1ED9 A; 4LR8 A; 4UPI A; 3WAW A; 5EGE A; 1URA A; 4KJG A; 3ED4 A; 3T02 A; 1KH4 A; 4UPL A; 3NKQ A; 4LRC A; 4UOO A; 3UN3 A; 3BDH A; 5GRR A; 1ALJ A; 1EW9 A; 1URB A; 4GTZ A; 5DLV A; 1E33 P; 4NWX A; 3NKM A; 5C66 A; 1HQA A; 1EI6 A; 2GSU A; 3Q3Q A; 2XR9 A; 1N2K A; 4LR2 A; 1AUK A; 1ZEB A; 2GSN A; 3M8Y A; 3WAX A; 2IFY A; 2W8D A; 3UNY A; 5LRN A; 1N2L A; 3BDF A; 5HRT A; 4CXU A; 5LRM A; 3BDG A; 5IJS A; 5DLW A; 3M7V A; 1E3C P; 1ELZ A; 2GA3 A; 5K4P A; 3BDG B; 3TG0 A; 1EW8 A; 5AJ9 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...
