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 |
150
|
Knots found |
|
sequence length |
465
|
structure length |
465
|
Chain Sequence |
GLQAQEKQPTPNLVFIMADQYRGDAIGCIGKEPVKTPHLDKLASEGINFTNAISSYPVSSPARGMLMTGMYPIGSKVTGNCNSETAPYGVELSQNARCWSDVLKDQGYNMGYIGKWHLDAPYKPYVDTYNNRGKVAWNEWCPPERRHGFDHWIAYGTYDYHLKPMYWNTTAPRDSFYYVNQWGPEYEASKAIEYINGQKDQKQPFALVVSMNPPHTGYELVPDRYKEIYKDLDVEALCKGRPDIPAKGTEMGDYFRNNIRNYYACITGVDENVGRIIEALKQNNLFDNTIVVFTSDHGICMGAHENAGKDIFYEESMRIPMILSWPDQIKPRKSDPLMIAFADLYPTLLSMMGFSKEIPETVQTFDLSNEVLTGKNKKDLVQPYYFVKFDNHATGYRGLRTDRYTYAVHATDGKIDNVILFDRTNDPHEMNNIASQQLKLTHTFNRQLKTWLEKTNDPFAQYIKL
|
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 |
X-ray crystal structure of the putative sulfatase yidJ from Bacteroides fragilis.
rcsb |
| molecule tags |
Hydrolase
|
| source organism |
Bacteroides fragilis
|
| molecule keywords |
Putative sulfatase yidJ
|
| total genus |
150
|
| structure length |
465
|
| sequence length |
465
|
| other databases |
 KnotProt 2.0: S +31
|
| ec nomenclature | |
| pdb deposition date | 2007-08-17 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF00884 | Sulfatase | Sulfatase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 2-Layer Sandwich | Arylsulfatase, C-terminal domain | Arylsulfatase, C-terminal domain | ||
| Alpha Beta | 3-Layer(aba) Sandwich | Alkaline Phosphatase, subunit A | Alkaline Phosphatase, subunit A |
#chains in the Genus database with same CATH superfamily 1HJK A; 2W5T A; 3NKQ A; 4GTX A; 5INH A; 4MHX A; 4LR7 A; 5L0K A; 3NKP A; 4N7T A; 4UPL A; 1ANI A; 1EQJ A; 1EW2 A; 5EGE A; 3M8Y A; 3Q3Q A; 2W5X A; 4LRA A; 5LRM A; 5LIA A; 5GRR A; 4UPH A; 1URB A; 2X98 A; 3NKM A; 5L0B A; 4ZG6 A; 3WAV A; 2IFY A; 3TWZ A; 4LRB A; 4CYS A; 2ANH A; 1ELX A; 5K4P A; 3LXQ A; 3IDD A; 5IJS A; 5LQQ A; 3M7V A; 3NKR A; 4LRC A; 1B8J A; 5TJ3 A; 3M8W A; 4CXU A; 3NVL A; 1SHN A; 3UN3 A; 1KH7 A; 4LR9 A; 1EW8 A; 1URA A; 1E2S P; 3WAW A; 4LRE A; 3NKO A; 1Y6V A; 4UPK A; 3WBH A; 2QZU A; 1AJC A; 1ED9 A; 1KH5 A; 1AJB A; 1ALI A; 3BDF A; 1ALK A; 2D1G A; 3ED4 A; 5IJQ A; 2GSO A; 4KAY A; 1KHL A; 4GTY A; 1Y7A A; 3BDG A; 1KHK A; 5GOV A; 1E1Z P; 1KH9 A; 3IGZ B; 3OT9 A; 2XR9 A; 4UOP A; 3DYC A; 3MK2 A; 3TX0 A; 1AUK A; 4YR1 A; 1ALJ A; 5L0E A; 1KH4 A; 5DLW A; 1N2K A; 1ALH A; 2W8S A; 3CMR A; 4B56 A; 1O99 A; 1KHJ A; 3IGY B; 3KD8 A; 4ZG9 A; 3UNY A; 4KM4 A; 1ANJ A; 3T01 A; 4FDI A; 1E33 P; 5LRN A; 4LRD A; 4GTZ A; 5HRT A; 4UOO A; 3SZZ A; 3DPC A; 2W5R A; 1E3C P; 4FDJ A; 2G9Y A; 2VQR A; 3A52 A; 3M8Z A; 4KJG A; 5DLV A; 4ZG7 A; 2RH6 A; 4QAX A; 1FSU A; 3MK1 A; 4LR8 A; 1P49 A; 5KXA A; 2IUC A; 2XRG A; 3TG0 A; 4KAV A; 5AJ9 A; 4MIV A; 4UOR A; 1EI6 A; 2W5W A; 4GTW A; 4LQY A; 1ELZ A; 5DLT A; 1ED8 A; 2W5Q A; 3UO0 A; 4LRF A; 3UN5 A; 1ELY A; 3NKN A; 1O98 A; 2GSN A; 1K7H A; 3B5Q A; 1ZED A; 2W5V A; 2W5S A; 3BDH A; 1AJA A; 2GA3 A; 4TN0 A; 3T00 A; 2GSU A; 4ZGA A; 4CXK A; 1SHQ A; 1ZEF A; 4CXS A; 2ZKT A; 3T02 A; 3WAY A; 4CYR A; 4NWX A; 4UPI A; 5C66 A; 5EGH A; 3UN2 A; 3E2D A; 2W8D A; 2GLQ A; 3MK0 A; 1AJD A; 4NWJ A; 1HDH A; 1N2L A; 1KHN A; 1ZEB A; 1HQA A; 4KJD A; 4LR2 A; 2IUC B; 3BDG B; 4MY4 A; 1EJJ A; 1EW9 A; 3SZY A; 3WAX A; #chains in the Genus database with same CATH topology 4RS6 A; 1HJK A; 2W5T A; 3NKQ A; 4GTX A; 5INH A; 4MHX A; 4LR7 A; 3P2Z A; 4J7B B; 3NKP A; 5L0K A; 4N7T A; 4UPL A; 1ANI A; 3RQ7 A; 1EQJ A; 1EW2 A; 5EGE A; 3M8Y A; 3Q3Q A; 2W5X A; 2OJX A; 2E50 A; 4LRA A; 5LRM A; 5GRR A; 4UPH A; 5LIA A; 3P37 A; 1URB A; 2X98 A; 3NKM A; 1Q4O A; 5L0B A; 4ZG6 A; 5DNJ A; 3P34 A; 4X9R A; 3WAV A; 2VKZ G; 4YYP A; 2IFY A; 2N19 A; 4WHH A; 3TWZ A; 4LRB A; 4CYS A; 2ANH A; 1ELX A; 5K4P A; 3LXQ A; 5LHZ A; 3IDD A; 3HIH A; 5IJS A; 5LQQ A; 3M7V A; 4H71 A; 3NKR A; 4LRC A; 1B8J A; 5TJ3 A; 3M8W A; 2I9Z A; 4CXU A; 4WHL A; 3NVL A; 4HAB A; 3LM3 A; 1SHN A; 1KH7 A; 4LR9 A; 1EW8 A; 3HIK A; 1URA A; 1E2S P; 4H5X A; 3UN3 A; 4N7Z A; 3WAW A; 1A87 A; 4LRE A; 3NKO A; 1Y6V A; 4UPK A; 4O9W A; 3WBH A; 2QZU A; 1AJC A; 1ED9 A; 1KH5 A; 1AJB A; 1ALI A; 4O56 A; 4NKB A; 1ALK A; 3BDF A; 3FVH A; 2D1G A; 3ED4 A; 5IJQ A; 4X9V A; 4LKM A; 4RCP A; 2GSO A; 4KAY A; 1KHL A; 4GTY A; 3BZI A; 1Y7A A; 3BDG A; 1KHK A; 4WHK A; 5GOV A; 4HCO A; 1E1Z P; 4X9W A; 1KH9 A; 3HMJ G; 3IGZ B; 3OT9 A; 1E2T A; 2XR9 A; 4UOP A; 3DYC A; 3MK2 A; 3TX0 A; 1AUK A; 3P35 A; 5DMV C; 4YR1 A; 4E9C A; 1ALJ A; 5L0E A; 1F32 A; 1KH4 A; 1N2K A; 5DLW A; 1ALH A; 2OGQ A; 2W8S A; 5DAY A; 1O99 A; 1KHJ A; 3CMR A; 3IGY B; 3KD8 A; 4B56 A; 4ZG9 A; 3GYV A; 4KM4 A; 3UNY A; 3KDR A; 1ANJ A; 3T01 A; 4FDI A; 1E33 P; 3C5L A; 5LRN A; 4LRD A; 4GTZ A; 5HRT A; 4UOO A; 3SZZ A; 3DPC A; 2W5R A; 1E3C P; 4FDJ A; 4G7N A; 2G9Y A; 2VQR A; 3A52 A; 3M8Z A; 4KJG A; 5DLV A; 2IA9 A; 3FS3 A; 4ZG7 A; 2RH6 A; 4QAX A; 1FSU A; 3MK1 A; 4E9D A; 4LR8 A; 1P49 A; 5KXA A; 3P2W A; 2IUC A; 2XRG A; 3TG0 A; 4KAV A; 5AJ9 A; 4MIV A; 4UOR A; 3GYW A; 1EI6 A; 4HY2 A; 4XB0 A; 2W5W A; 3HFD A; 4GTW A; 4LQY A; 1ELZ A; 5DLT A; 3P36 A; 1ED8 A; 2W5Q A; 3UO0 A; 4LRF A; 3UN5 A; 1ELY A; 3NKN A; 1O98 A; 2GSN A; 1K7H A; 3B5Q A; 1ZED A; 2W5V A; 2W5S A; 3BDH A; 1AJA A; 5DMS A; 4E67 A; 4NK7 A; 2GA3 A; 4TN0 A; 3T00 A; 2GSU A; 4ZGA A; 4O6W A; 5J19 A; 4CXK A; 1SHQ A; 1ZEF A; 4CXS A; 2ZKT A; 2I9X A; 3T02 A; 3WAY A; 4CYR A; 4NWX A; 4UPI A; 4N9J A; 5C66 A; 5EGH A; 3UN2 A; 3E2D A; 2W8D A; 2GLQ A; 3MK0 A; 1AJD A; 4NWJ A; 1HDH A; 1N2L A; 1Q4K A; 3Q1I A; 4LKL A; 1KHN A; 1ZEB A; 1HQA A; 4KJD A; 1UMW A; 4LR2 A; 2IUC B; 4DFW A; 3BDG B; 4MY4 A; 1EJJ A; 4N7V A; 1EW9 A; 3SZY A; 2UV8 G; 3WAX A; 1F34 B; #chains in the Genus database with same CATH homology 1HJK A; 2W5T A; 3NKQ A; 4GTX A; 5INH A; 4MHX A; 4LR7 A; 5L0K A; 3NKP A; 4N7T A; 4UPL A; 1ANI A; 1EQJ A; 1EW2 A; 5EGE A; 3M8Y A; 3Q3Q A; 2W5X A; 2E50 A; 4LRA A; 5LRM A; 5GRR A; 4UPH A; 5LIA A; 1URB A; 2X98 A; 3NKM A; 5L0B A; 4ZG6 A; 3WAV A; 2VKZ G; 2IFY A; 3TWZ A; 4LRB A; 4CYS A; 2ANH A; 1ELX A; 5K4P A; 3LXQ A; 3IDD A; 5IJS A; 5LQQ A; 3M7V A; 3NKR A; 4LRC A; 1B8J A; 5TJ3 A; 3M8W A; 4CXU A; 3NVL A; 1SHN A; 3LM3 A; 3UN3 A; 1KH7 A; 4LR9 A; 1EW8 A; 1URA A; 1E2S P; 3WAW A; 4N7Z A; 4LRE A; 3NKO A; 1Y6V A; 4UPK A; 3WBH A; 2QZU A; 1AJC A; 1ED9 A; 1KH5 A; 1AJB A; 1ALI A; 3BDF A; 4NKB A; 1ALK A; 2D1G A; 3ED4 A; 5IJQ A; 2GSO A; 4KAY A; 1KHL A; 4GTY A; 1Y7A A; 3BDG A; 1KHK A; 5GOV A; 1E1Z P; 1KH9 A; 3HMJ G; 3IGZ B; 3OT9 A; 1E2T A; 2XR9 A; 4UOP A; 3DYC A; 3MK2 A; 3TX0 A; 1AUK A; 4YR1 A; 1ALJ A; 5L0E A; 1KH4 A; 5DLW A; 1N2K A; 1ALH A; 2W8S A; 3CMR A; 5DAY A; 1O99 A; 1KHJ A; 3IGY B; 3KD8 A; 4B56 A; 4ZG9 A; 3GYV A; 4KM4 A; 3UNY A; 3KDR A; 1ANJ A; 3T01 A; 4FDI A; 1E33 P; 5LRN A; 4LRD A; 4GTZ A; 5HRT A; 4UOO A; 3SZZ A; 3DPC A; 2W5R A; 1E3C P; 4FDJ A; 4G7N A; 2G9Y A; 2VQR A; 3A52 A; 3M8Z A; 4KJG A; 5DLV A; 3FS3 A; 4ZG7 A; 2RH6 A; 4QAX A; 1FSU A; 3MK1 A; 4LR8 A; 1P49 A; 5KXA A; 2IUC A; 2XRG A; 3TG0 A; 4KAV A; 5AJ9 A; 4MIV A; 4UOR A; 3GYW A; 1EI6 A; 2W5W A; 3HFD A; 4GTW A; 4LQY A; 1ELZ A; 5DLT A; 1ED8 A; 2W5Q A; 3UO0 A; 4LRF A; 3UN5 A; 1ELY A; 3NKN A; 1O98 A; 2GSN A; 1K7H A; 3B5Q A; 1ZED A; 2W5V A; 2W5S A; 3BDH A; 1AJA A; 2GA3 A; 4TN0 A; 4NK7 A; 3T00 A; 2GSU A; 4ZGA A; 4CXK A; 1SHQ A; 1ZEF A; 4CXS A; 2ZKT A; 3T02 A; 3WAY A; 4CYR A; 4NWX A; 4UPI A; 4N9J A; 5C66 A; 5EGH A; 3UN2 A; 3E2D A; 2W8D A; 2GLQ A; 3MK0 A; 1AJD A; 4NWJ A; 1HDH A; 1N2L A; 1KHN A; 1ZEB A; 1HQA A; 4KJD A; 4LR2 A; 2IUC B; 3BDG B; 4MY4 A; 1EJJ A; 4N7V A; 1EW9 A; 3SZY A; 2UV8 G; 3WAX 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...
