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 |
158
|
sequence length |
439
|
structure length |
439
|
Chain Sequence |
RKIDPSRGATLGDGTPNDNDRIEIGPTQLAFSEWAAAGLQLPNLDRMREYRWKRLTQAIVDRGYGGLLMFDPLNIRYATDSTNMQLWNTHNPFRAVLLCADGYMVIWDYKNSPFLSKFNPLVREQRSGADLFYFDRGDKVDVQADVFANEVRVLMQDHAPGHTRLAVDKIMLHGLRALEAQGFEIMEGEEVTEKTRAIKGPDEILAMRCASHACETAVAEMEKFARAHVGDGKTSEDDIWAVLHAENIKRGGEWIETRLLASGPRTNPWFQECGPRITQKNEIIAFDTDLIGSYGICVDISRTWWIGDQKPRPDMVYAMQHAHEHIMTNMEMLKPGVMIPDLTANCHRLDDKFQAQKYGCLMHGVGLCNEWPLVAYPDKAVPGSYDYPLEPGMVLCVEAAVGEVGGDFSIKLEDQVLITEDGYENLTTYPFDAALMGLA
|
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 molecular basis for the novel catalytic mechanism and evolution of DddP, an abundant peptidase-like bacterial Dimethylsulfoniopropionate lyase: a new enzyme from an old fold.
pubmed doi rcsb |
| molecule keywords |
Peptidase M24
|
| molecule tags |
Lyase
|
| source organism |
Silicibacter lacuscaerulensis iti-1157
|
| total genus |
158
|
| structure length |
439
|
| sequence length |
439
|
| chains with identical sequence |
B, C, D
|
| ec nomenclature | |
| pdb deposition date | 2014-12-27 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF00557 | Peptidase_M24 | Metallopeptidase family M24 |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 3-Layer(aba) Sandwich | Creatine Amidinohydrolase; Chain A, domain 1 | Creatinase/prolidase N-terminal domain | ||
| Alpha Beta | Alpha-Beta Complex | Creatine Amidinohydrolase | Creatinase/methionine aminopeptidase superfamily |
#chains in the Genus database with same CATH superfamily 3L24 A; 2EVO A; 5E5B A; 3BIT A; 4FLL A; 3CB5 A; 1CHM A; 1PV9 A; 4R60 A; 3FMR A; 1WY2 A; 2GU6 A; 4PNC A; 1YW7 A; 2V3Y A; 4IDY A; 1XNZ A; 2ADU A; 4RZY A; 2GA2 A; 4FO7 A; 2BWS A; 4IKR A; 2BHC A; 4MAT A; 4RGZ 1; 2HOW A; 3TB5 A; 1WLR A; 2BN7 A; 2BB7 A; 1WN1 A; 2GG0 A; 2B3K A; 2GG8 A; 4Z7M A; 1B6A A; 2EVM A; 4S00 A; 4PV4 A; 2EVC A; 3MR1 A; 2Q8K A; 4U75 A; 1KQ9 A; 1WL9 A; 1BOA A; 2P9A A; 3QOC A; 1C23 A; 2OAZ A; 4U6Z A; 4ZWP A; 4IKU A; 3IU9 A; 4U70 A; 4U6C A; 5CLS A; 4U6E A; 1QZY A; 4U73 A; 3Q6D A; 5FCH A; 2BH3 A; 5CDL A; 2Q96 A; 2V6C A; 4KM3 A; 1QXZ A; 2P98 A; 4U6W A; 2BHD A; 1WKM A; 3OOO A; 5E2C A; 2GG9 A; 3CTZ A; 2GG5 A; 2NQ7 A; 4FLK A; 4FLI A; 4U1B A; 5JFR A; 2OKN A; 1KP0 A; 5CNX A; 3MX6 A; 1XGO A; 3PKE A; 3ROR A; 2EA4 A; 3IU7 A; 2BHA A; 1XGS A; 2IW2 A; 1MAT A; 2GU4 A; 3S6B A; 4IPA A; 2B3H A; 1O0X A; 5D6E A; 3RVA A; 3PKD A; 1YW9 A; 2GG3 A; 1R5H A; 4ZWU A; 3D27 A; 4A6W A; 3TAV A; 4IF7 A; 2EA2 A; 3OVK A; 1BN5 A; 1C27 A; 1XGM A; 2GZ5 A; 4A6V A; 1N51 A; 1A16 A; 2BWX A; 2V3Z A; 5CE6 A; 1C24 A; 2GGC A; 4FKC A; 4FO8 A; 2Q93 A; 4FUK A; 2GU7 A; 4HXX A; 3PKA A; 1B59 A; 1KQ0 A; 4FLJ A; 3O5V A; 2GG7 A; 1W7V A; 2MAT A; 3BIQ A; 3I7M A; 4ZNG A; 3PEB A; 3FMQ A; 3IU8 A; 2BWY A; 4EGE A; 3PN9 A; 1JAW A; 5CIK A; 1WBQ A; 5JI6 A; 3CB6 A; 4S2R P; 1QXW A; 1XGN A; 2BWV A; 1C22 A; 3IG4 A; 4QR8 A; 4U76 A; 2Q94 A; 2V3X A; 4S01 A; 3FM3 A; 1YW8 A; 5CDV A; 3PKC A; 3BIP A; 1C21 A; 4ZWO A; 3PKB A; 1YVM A; 4S2T P; 1Y1N A; 4IU6 A; 2GGB A; 2Q95 A; 5FCF A; 4IEC A; 2GU5 A; 3MAT A; 1R58 A; 1W2M A; 2Q92 A; 4OOK A; 4B28 A; 3IL0 A; 2ZSG A; 4U71 A; 2BWT A; 2G6P A; 2B3L A; 2BWW A; 5CDE A; 2DFI A; 4JUQ A; 5D6F A; 5JHU A; 4U69 A; 4RZZ A; 1YJ3 A; 2BHB A; 2NQ6 A; 4U6J A; 4IKS A; 2GTX A; 2P99 A; 2GG2 A; 4IKT A; 1R5G A; 2BWU A; 1QXY A; 1WL6 A; 3L7G A; 1M35 A; #chains in the Genus database with same CATH topology 3L24 A; 2EVO A; 5E5B A; 3BIT A; 4FLL A; 3CB5 A; 1CHM A; 1PV9 A; 4R60 A; 3FMR A; 1WY2 A; 2GU6 A; 4PNC A; 1YW7 A; 2V3Y A; 4IDY A; 1XNZ A; 2ADU A; 4RZY A; 2GA2 A; 4FO7 A; 2BWS A; 4IKR A; 2BHC A; 4MAT A; 4RGZ 1; 2HOW A; 3TB5 A; 1WLR A; 2BN7 A; 2BB7 A; 1WN1 A; 2GG0 A; 2B3K A; 2GG8 A; 4Z7M A; 1B6A A; 2EVM A; 4S00 A; 4PV4 A; 2EVC A; 3MR1 A; 2Q8K A; 4U75 A; 1KQ9 A; 1WL9 A; 1BOA A; 2P9A A; 3QOC A; 1C23 A; 2OAZ A; 4U6Z A; 4ZWP A; 4IKU A; 3IU9 A; 4U70 A; 4U6C A; 5CLS A; 4U6E A; 1QZY A; 4U73 A; 3Q6D A; 5FCH A; 2BH3 A; 5CDL A; 2Q96 A; 2V6C A; 4KM3 A; 1QXZ A; 2P98 A; 4U6W A; 2BHD A; 1WKM A; 3OOO A; 5E2C A; 2GG9 A; 3CTZ A; 2GG5 A; 2NQ7 A; 4FLK A; 4FLI A; 4U1B A; 5JFR A; 2OKN A; 1KP0 A; 5CNX A; 3MX6 A; 1XGO A; 3PKE A; 3ROR A; 2EA4 A; 3IU7 A; 2BHA A; 1XGS A; 2IW2 A; 1MAT A; 2GU4 A; 3S6B A; 4IPA A; 2B3H A; 1O0X A; 5D6E A; 3RVA A; 3PKD A; 1YW9 A; 2GG3 A; 1R5H A; 4ZWU A; 3D27 A; 4A6W A; 3TAV A; 4IF7 A; 2EA2 A; 3OVK A; 1BN5 A; 1C27 A; 1XGM A; 2GZ5 A; 4A6V A; 1N51 A; 1A16 A; 2BWX A; 2V3Z A; 5CE6 A; 1C24 A; 2GGC A; 4FKC A; 4FO8 A; 2Q93 A; 4FUK A; 2GU7 A; 4HXX A; 3PKA A; 1B59 A; 1KQ0 A; 4FLJ A; 3O5V A; 2GG7 A; 1W7V A; 2MAT A; 3BIQ A; 3I7M A; 4ZNG A; 3PEB A; 3FMQ A; 3IU8 A; 2BWY A; 4EGE A; 3PN9 A; 1JAW A; 5CIK A; 1WBQ A; 5JI6 A; 3CB6 A; 4S2R P; 1QXW A; 1XGN A; 2BWV A; 1C22 A; 3IG4 A; 4QR8 A; 4U76 A; 2Q94 A; 2V3X A; 4S01 A; 3FM3 A; 1YW8 A; 5CDV A; 3PKC A; 3BIP A; 1C21 A; 4ZWO A; 3PKB A; 1YVM A; 4S2T P; 1Y1N A; 4IU6 A; 2GGB A; 2Q95 A; 5FCF A; 4IEC A; 2GU5 A; 3MAT A; 1R58 A; 1W2M A; 2Q92 A; 4OOK A; 4B28 A; 3IL0 A; 2ZSG A; 4U71 A; 2BWT A; 2G6P A; 2B3L A; 2BWW A; 5CDE A; 2DFI A; 4JUQ A; 5D6F A; 5JHU A; 4U69 A; 4RZZ A; 1YJ3 A; 2BHB A; 2NQ6 A; 4U6J A; 4IKS A; 2GTX A; 2P99 A; 2GG2 A; 4IKT A; 1R5G A; 2BWU A; 1QXY A; 1WL6 A; 3L7G A; 1M35 A; #chains in the Genus database with same CATH homology 3L24 A; 2EVO A; 5E5B A; 3BIT A; 4FLL A; 3CB5 A; 1CHM A; 1PV9 A; 4R60 A; 3FMR A; 1WY2 A; 2GU6 A; 4PNC A; 1YW7 A; 2V3Y A; 4IDY A; 1XNZ A; 2ADU A; 4RZY A; 2GA2 A; 4FO7 A; 2BWS A; 4IKR A; 2BHC A; 4MAT A; 4RGZ 1; 2HOW A; 3TB5 A; 1WLR A; 2BN7 A; 2BB7 A; 1WN1 A; 2GG0 A; 2B3K A; 2GG8 A; 4Z7M A; 1B6A A; 2EVM A; 4S00 A; 4PV4 A; 2EVC A; 3MR1 A; 2Q8K A; 4U75 A; 1KQ9 A; 1WL9 A; 1BOA A; 2P9A A; 3QOC A; 1C23 A; 2OAZ A; 4U6Z A; 4ZWP A; 4IKU A; 3IU9 A; 4U70 A; 4U6C A; 5CLS A; 4U6E A; 1QZY A; 4U73 A; 3Q6D A; 5FCH A; 2BH3 A; 5CDL A; 2Q96 A; 2V6C A; 4KM3 A; 1QXZ A; 2P98 A; 4U6W A; 2BHD A; 1WKM A; 3OOO A; 5E2C A; 2GG9 A; 3CTZ A; 2GG5 A; 2NQ7 A; 4FLK A; 4FLI A; 4U1B A; 5JFR A; 2OKN A; 1KP0 A; 5CNX A; 3MX6 A; 1XGO A; 3PKE A; 3ROR A; 2EA4 A; 3IU7 A; 2BHA A; 1XGS A; 2IW2 A; 1MAT A; 2GU4 A; 3S6B A; 4IPA A; 2B3H A; 1O0X A; 5D6E A; 3RVA A; 3PKD A; 1YW9 A; 2GG3 A; 1R5H A; 4ZWU A; 3D27 A; 4A6W A; 3TAV A; 4IF7 A; 2EA2 A; 3OVK A; 1BN5 A; 1C27 A; 1XGM A; 2GZ5 A; 4A6V A; 1N51 A; 1A16 A; 2BWX A; 2V3Z A; 5CE6 A; 1C24 A; 2GGC A; 4FKC A; 4FO8 A; 2Q93 A; 4FUK A; 2GU7 A; 4HXX A; 3PKA A; 1B59 A; 1KQ0 A; 4FLJ A; 3O5V A; 2GG7 A; 1W7V A; 2MAT A; 3BIQ A; 3I7M A; 4ZNG A; 3PEB A; 3FMQ A; 3IU8 A; 2BWY A; 4EGE A; 3PN9 A; 1JAW A; 5CIK A; 1WBQ A; 5JI6 A; 3CB6 A; 4S2R P; 1QXW A; 1XGN A; 2BWV A; 1C22 A; 3IG4 A; 4QR8 A; 4U76 A; 2Q94 A; 2V3X A; 4S01 A; 3FM3 A; 1YW8 A; 5CDV A; 3PKC A; 3BIP A; 1C21 A; 4ZWO A; 3PKB A; 1YVM A; 4S2T P; 1Y1N A; 4IU6 A; 2GGB A; 2Q95 A; 5FCF A; 4IEC A; 2GU5 A; 3MAT A; 1R58 A; 1W2M A; 2Q92 A; 4OOK A; 4B28 A; 3IL0 A; 2ZSG A; 4U71 A; 2BWT A; 2G6P A; 2B3L A; 2BWW A; 5CDE A; 2DFI A; 4JUQ A; 5D6F A; 5JHU A; 4U69 A; 4RZZ A; 1YJ3 A; 2BHB A; 2NQ6 A; 4U6J A; 4IKS A; 2GTX A; 2P99 A; 2GG2 A; 4IKT A; 1R5G A; 2BWU A; 1QXY A; 1WL6 A; 3L7G A; 1M35 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...
