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
|
sequence length |
246
|
structure length |
246
|
Chain Sequence |
GAFMSSGPRLNTDYTSANQDSRVQFIVLHYTSTDLPHSLGILTHGGVSAHYLIGDDEPATVYRLVDENRRAWHAGVSEWQGRTWLNATSIGIEIVNQGYRDTPQGRVWYPFSEAQIQALIPLLKDIAKRHGITPDRIIGHSDIAPGRKVDPGPLFPWKRLADAGLVPWPKPGELARRLAELNGQLPDVRWFQQQLARHGYLVPQTGELEKDTRDVIGAFQMKYRPARFDGEPDLETAALLLAVPTS
|
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 |
Reaction Products and the X-Ray Structure of Ampdh2, a Virulence Determinant of Pseudomonas Aeruginosa.
pubmed doi rcsb |
| molecule keywords |
AMPDH2
|
| molecule tags |
Hydrolase
|
| source organism |
Pseudomonas aeruginosa pao1
|
| total genus |
70
|
| structure length |
246
|
| sequence length |
246
|
| chains with identical sequence |
B
|
| ec nomenclature |
ec
3.5.1.28: N-acetylmuramoyl-L-alanine amidase. |
| pdb deposition date | 2013-04-16 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01471 | PG_binding_1 | Putative peptidoglycan binding domain |
| A | PF01510 | Amidase_2 | N-acetylmuramoyl-L-alanine amidase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Orthogonal Bundle | Muramoyl-pentapeptide Carboxypeptidase; domain 1 | PGBD-like superfamily/PGBD | ||
| Alpha Beta | 3-Layer(aba) Sandwich | Lysozyme-like | Peptidoglycan recognition protein-like |
#chains in the Genus database with same CATH superfamily 1SK3 A; 3UMQ A; 2BH7 A; 4Q8S A; 2Y28 A; 3BKV A; 2F2L X; 5DWF A; 4BJ4 A; 3T39 A; 4GF9 A; 4KNK A; 4Q9E A; 3T2V A; 4ZXM A; 1J3G A; 1TWQ A; 2F2L A; 3QV4 A; 1LBA A; 3COR A; 3O4K A; 4OPP A; 3CXA A; 2APH A; 2AR3 A; 4BXD A; 3USX A; 1SXR A; 2L47 A; 5E0A A; 3RT4 A; 1EAK A; 1OHT A; 2XZ4 A; 4LPQ A; 2Z9N A; 4X36 A; 3LAT A; 4BXE A; 3HMB A; 3TRU A; 3CG9 A; 3EP1 A; 2Y2E A; 1YB0 A; 2RKQ A; 3NW3 A; 1SK4 A; 2Y2B A; 4IVV A; 4KNL A; 4OLS A; 3D2Y A; 3NG4 A; 2EAX A; 3RDR A; 2Y2C A; 4G54 A; 1S2J A; 4OUG A; 1LBU A; 1YCK A; 1ARO L; 4Z8I A; 2WKX A; 2R90 A; 2XZ8 A; 3NNO A; 3C2X A; 2EAV A; 4BXJ A; 2Y2D A; 4FNN A; 5CTV A; 2CB3 A; 2R2K A; 3QJ1 A; 3UML A; 1Z6I A; 1L6J A; 4BPA A; 3UIL A; 4BOL A; 5E0B A; 3D2Z A; 3OGX A; 3QS0 A; 3BKH A; 4ORV A; #chains in the Genus database with same CATH topology 1SK3 A; 3UMQ A; 2BH7 A; 4Q8S A; 2Y28 A; 3BKV A; 2F2L X; 5DWF A; 4BJ4 A; 3T39 A; 4GF9 A; 4KNK A; 4Q9E A; 3T2V A; 4ZXM A; 1J3G A; 1TWQ A; 2F2L A; 3QV4 A; 1LBA A; 3COR A; 3O4K A; 4OPP A; 3CXA A; 2APH A; 2AR3 A; 4BXD A; 3USX A; 1SXR A; 2L47 A; 5E0A A; 3RT4 A; 1EAK A; 1OHT A; 2XZ4 A; 4LPQ A; 2Z9N A; 4X36 A; 3LAT A; 4BXE A; 3HMB A; 3TRU A; 3CG9 A; 3EP1 A; 2Y2E A; 1YB0 A; 2RKQ A; 3NW3 A; 1SK4 A; 2Y2B A; 4IVV A; 4KNL A; 4OLS A; 3D2Y A; 3NG4 A; 2EAX A; 3RDR A; 2Y2C A; 4G54 A; 1S2J A; 4OUG A; 1LBU A; 1YCK A; 1ARO L; 4Z8I A; 2WKX A; 2R90 A; 2XZ8 A; 3NNO A; 3C2X A; 2EAV A; 4BXJ A; 2Y2D A; 4FNN A; 5CTV A; 2CB3 A; 2R2K A; 3QJ1 A; 3UML A; 1Z6I A; 1L6J A; 4BPA A; 3UIL A; 4BOL A; 5E0B A; 3D2Z A; 3OGX A; 3QS0 A; 3BKH A; 4ORV A; #chains in the Genus database with same CATH homology 1SK3 A; 3UMQ A; 2BH7 A; 4Q8S A; 2Y28 A; 3BKV A; 2F2L X; 5DWF A; 4BJ4 A; 3T39 A; 4GF9 A; 4KNK A; 4Q9E A; 3T2V A; 4ZXM A; 1J3G A; 1TWQ A; 2F2L A; 3QV4 A; 1LBA A; 3COR A; 3O4K A; 4OPP A; 3CXA A; 2APH A; 2AR3 A; 4BXD A; 3USX A; 1SXR A; 2L47 A; 5E0A A; 3RT4 A; 1EAK A; 1OHT A; 2XZ4 A; 4LPQ A; 2Z9N A; 4X36 A; 3LAT A; 4BXE A; 3HMB A; 3TRU A; 3CG9 A; 3EP1 A; 2Y2E A; 1YB0 A; 2RKQ A; 3NW3 A; 1SK4 A; 2Y2B A; 4IVV A; 4KNL A; 4OLS A; 3D2Y A; 3NG4 A; 2EAX A; 3RDR A; 2Y2C A; 4G54 A; 1S2J A; 4OUG A; 1LBU A; 1YCK A; 1ARO L; 4Z8I A; 2WKX A; 2R90 A; 2XZ8 A; 3NNO A; 3C2X A; 2EAV A; 4BXJ A; 2Y2D A; 4FNN A; 5CTV A; 2CB3 A; 2R2K A; 3QJ1 A; 3UML A; 1Z6I A; 1L6J A; 4BPA A; 3UIL A; 4BOL A; 5E0B A; 3D2Z A; 3OGX A; 3QS0 A; 3BKH A; 4ORV 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...
