4RZZA

Crystal structure of metallopeptidase-like dimethylsulphoniopropionate (dmsp) lyase rldddp in complex with phosphate
Total Genus 158
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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
RKIDPSRGATLGDGTPNDNDRIEIGPTQLAFSEWAAAGLQLPNLDRMREYRWKRLTQAIVDRGYGGLLMFDPLNIRYATDSTNMQLWNTHNPFRAVLLCADGYMVIWDYKNSPFLSKFNPLVREQRSGADLFYFDRGDKVDVQADVFANEVRVLMQDHAPGHTRLAVDKIMLHGLRALEAQGFEIMEGEEVTEKTRAIKGPDEILAMRCASHACETAVAEMEKFARAHVGDGKTSEDDIWAVLHAENIKRGGEWIETRLLASGPRTNPWFQECGPRITQKNEIIAFDTDLIGSYGICVDISRTWWIGDQKPRPDMVYAMQHAHEHIMTNMEMLKPGVMIPDLTANCHRLDDKFQAQKYGCLMHGVGLCDEWPLVAYPDKAVPGSYDYPLEPGMVLCVEAAVGEVGGDFSIKLEDQVLITEDGYENLTTYPFDAALMGLA
Loading diagram...

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.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

molecule tags Lyase
source organism Silicibacter lacuscaerulensis iti-1157
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
total genus 158
structure length 439
sequence length 439
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2014-12-27

pfam database annotations

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
ClassArchitectureTopologyHomologyDomain
3.40.350.10 Alpha Beta 3-Layer(aba) Sandwich Creatine Amidinohydrolase; Chain A, domain 1 Creatinase/prolidase N-terminal domain 4rzzA01
3.90.230.10 Alpha Beta Alpha-Beta Complex Creatine Amidinohydrolase Creatinase/methionine aminopeptidase superfamily 4rzzA02
2P9AA 2BWYA 3BITA 4FKCA 4RZYA 1M35A 5CNXA 5FCHA 1B59A 2NQ6A 3IU7A 4U1BA 4IF7A 1Y1NA 4A6VA 4IECA 2Q93A 2Q8KA 5JHUA 4PV4A 4HXXA 2OKNA 4FUKA 1YJ3A 3IL0A 2BHCA 1C24A 4U76A 2GG9A 5E2CA 3BIQA 3D27A 3MX6A 4R60A 4S00A 5CLSA 1YW8A 1QXWA 1QZYA 2GU4A 2V3YA 4PNCA 4U69A 5D6EA 4U73A 4FLIA 4IPAA 1XGSA 4RZZA 2BHDA 2HOWA 2GU7A 3PEBA 1PV9A 1YVMA 3O5VA 2GZ5A 1YW9A 3OVKA 2B3HA 2GG2A 4FO8A 4ZWUA 4S2TP 3TAVA 2B3KA 2EA2A 2GG5A 3RORA 3FM3A 5JI6A 2BWTA 5CDVA 2V3ZA 4EGEA 3OOOA 3L24A 1WKMA 4Z7MA 4U70A 4FLLA 4IDYA 1C22A 1WBQA 3PKAA 1KQ0A 1XGOA 4FO7A 4IKRA 2EA4A 3FMQA 2NQ7A 2Q94A 1B6AA 1XGMA 2OAZA 3CTZA 1A16A 1XGNA 2G6PA 3IU8A 4FLJA 1R5GA 2BH3A 2BWSA 4ZWOA 3IU9A 3PKCA 1WLRA 2BWXA 1KQ9A 3TB5A 4ZNGA 1WY2A 2GGCA 1QXYA 2Q95A 3CB6A 2GG0A 1WN1A 2BB7A 3PKEA 3QOCA 2EVMA 2ZSGA 2GG7A 4IU6A 2V3XA 4RGZ1 3S6BA 2GU5A 1BOAA 5D6FA 2P98A 4U6WA 4JUQA 2BWVA 4U6EA 1R5HA 1C27A 3IG4A 5CIKA 2BN7A 3RVAA 3PN9A 2EVOA 3I7MA 2BWUA 4U6ZA 1W7VA 4A6WA 1YW7A 1KP0A 2Q92A 1XNZA 2P99A 3FMRA 4S2RP 2BWWA 5FCFA 4S01A 5JFRA 1WL9A 5CDEA 3MATA 4OOKA 2GG8A 2ADUA 3PKDA 4U6CA 4MATA 2GU6A 5CE6A 2BHBA 3Q6DA 2IW2A 3CB5A 4U75A 2DFIA 4ZWPA 1W2MA 1R58A 1WL6A 1BN5A 1MATA 2MATA 4IKSA 3L7GA 5CDLA 3MR1A 2B3LA 1QXZA 1C23A 1JAWA 2Q96A 1O0XA 1CHMA 4U6JA 2GG3A 2GTXA 5E5BA 1N51A 4FLKA 4IKTA 3BIPA 2V6CA 3PKBA 4IKUA 2GGBA 2BHAA 2GA2A 4KM3A 1C21A 2EVCA 4QR8A 4U71A 4B28A
chains in the Genus database with same CATH superfamily
2P9AA 2BWYA 3BITA 4FKCA 4RZYA 1M35A 5CNXA 5FCHA 1B59A 2NQ6A 3IU7A 4U1BA 4IF7A 1Y1NA 4A6VA 4IECA 2Q93A 2Q8KA 5JHUA 4PV4A 4HXXA 2OKNA 4FUKA 1YJ3A 3IL0A 2BHCA 1C24A 4U76A 2GG9A 5E2CA 3BIQA 3D27A 3MX6A 4R60A 4S00A 5CLSA 1YW8A 1QXWA 1QZYA 2GU4A 2V3YA 4PNCA 4U69A 5D6EA 4U73A 4FLIA 4IPAA 1XGSA 4RZZA 2BHDA 2HOWA 2GU7A 3PEBA 1PV9A 1YVMA 3O5VA 2GZ5A 1YW9A 3OVKA 2B3HA 2GG2A 4FO8A 4ZWUA 4S2TP 3TAVA 2B3KA 2EA2A 2GG5A 3RORA 3FM3A 5JI6A 2BWTA 5CDVA 2V3ZA 4EGEA 3OOOA 3L24A 1WKMA 4Z7MA 4U70A 4FLLA 4IDYA 1C22A 1WBQA 3PKAA 1KQ0A 1XGOA 4FO7A 4IKRA 2EA4A 3FMQA 2NQ7A 2Q94A 1B6AA 1XGMA 2OAZA 3CTZA 1A16A 1XGNA 2G6PA 3IU8A 4FLJA 1R5GA 2BH3A 2BWSA 4ZWOA 3IU9A 3PKCA 1WLRA 2BWXA 1KQ9A 3TB5A 4ZNGA 1WY2A 2GGCA 1QXYA 2Q95A 3CB6A 2GG0A 1WN1A 2BB7A 3PKEA 3QOCA 2EVMA 2ZSGA 2GG7A 4IU6A 2V3XA 4RGZ1 3S6BA 2GU5A 1BOAA 5D6FA 2P98A 4U6WA 4JUQA 2BWVA 4U6EA 1R5HA 1C27A 3IG4A 5CIKA 2BN7A 3RVAA 3PN9A 2EVOA 3I7MA 2BWUA 4U6ZA 1W7VA 4A6WA 1YW7A 1KP0A 2Q92A 1XNZA 2P99A 3FMRA 4S2RP 2BWWA 5FCFA 4S01A 5JFRA 1WL9A 5CDEA 3MATA 4OOKA 2GG8A 2ADUA 3PKDA 4U6CA 4MATA 2GU6A 5CE6A 2BHBA 3Q6DA 2IW2A 3CB5A 4U75A 2DFIA 4ZWPA 1W2MA 1R58A 1WL6A 1BN5A 1MATA 2MATA 4IKSA 3L7GA 5CDLA 3MR1A 2B3LA 1QXZA 1C23A 1JAWA 2Q96A 1O0XA 1CHMA 4U6JA 2GG3A 2GTXA 5E5BA 1N51A 4FLKA 4IKTA 3BIPA 2V6CA 3PKBA 4IKUA 2GGBA 2BHAA 2GA2A 4KM3A 1C21A 2EVCA 4QR8A 4U71A 4B28A
chains in the Genus database with same CATH topology
2P9AA 2BWYA 3BITA 4FKCA 4RZYA 1M35A 5CNXA 5FCHA 1B59A 2NQ6A 3IU7A 4U1BA 4IF7A 1Y1NA 4A6VA 4IECA 2Q93A 2Q8KA 5JHUA 4PV4A 4HXXA 2OKNA 4FUKA 1YJ3A 3IL0A 2BHCA 1C24A 4U76A 2GG9A 5E2CA 3BIQA 3D27A 3MX6A 4R60A 4S00A 5CLSA 1YW8A 1QXWA 1QZYA 2GU4A 2V3YA 4PNCA 4U69A 5D6EA 4U73A 4FLIA 4IPAA 1XGSA 4RZZA 2BHDA 2HOWA 2GU7A 3PEBA 1PV9A 1YVMA 3O5VA 2GZ5A 1YW9A 3OVKA 2B3HA 2GG2A 4FO8A 4ZWUA 4S2TP 3TAVA 2B3KA 2EA2A 2GG5A 3RORA 3FM3A 5JI6A 2BWTA 5CDVA 2V3ZA 4EGEA 3OOOA 3L24A 1WKMA 4Z7MA 4U70A 4FLLA 4IDYA 1C22A 1WBQA 3PKAA 1KQ0A 1XGOA 4FO7A 4IKRA 2EA4A 3FMQA 2NQ7A 2Q94A 1B6AA 1XGMA 2OAZA 3CTZA 1A16A 1XGNA 2G6PA 3IU8A 4FLJA 1R5GA 2BH3A 2BWSA 4ZWOA 3IU9A 3PKCA 1WLRA 2BWXA 1KQ9A 3TB5A 4ZNGA 1WY2A 2GGCA 1QXYA 2Q95A 3CB6A 2GG0A 1WN1A 2BB7A 3PKEA 3QOCA 2EVMA 2ZSGA 2GG7A 4IU6A 2V3XA 4RGZ1 3S6BA 2GU5A 1BOAA 5D6FA 2P98A 4U6WA 4JUQA 2BWVA 4U6EA 1R5HA 1C27A 3IG4A 5CIKA 2BN7A 3RVAA 3PN9A 2EVOA 3I7MA 2BWUA 4U6ZA 1W7VA 4A6WA 1YW7A 1KP0A 2Q92A 1XNZA 2P99A 3FMRA 4S2RP 2BWWA 5FCFA 4S01A 5JFRA 1WL9A 5CDEA 3MATA 4OOKA 2GG8A 2ADUA 3PKDA 4U6CA 4MATA 2GU6A 5CE6A 2BHBA 3Q6DA 2IW2A 3CB5A 4U75A 2DFIA 4ZWPA 1W2MA 1R58A 1WL6A 1BN5A 1MATA 2MATA 4IKSA 3L7GA 5CDLA 3MR1A 2B3LA 1QXZA 1C23A 1JAWA 2Q96A 1O0XA 1CHMA 4U6JA 2GG3A 2GTXA 5E5BA 1N51A 4FLKA 4IKTA 3BIPA 2V6CA 3PKBA 4IKUA 2GGBA 2BHAA 2GA2A 4KM3A 1C21A 2EVCA 4QR8A 4U71A 4B28A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2P9A A;  2BWY A;  3BIT A;  4FKC A;  4RZY A;  1M35 A;  5CNX A;  5FCH A;  1B59 A;  2NQ6 A;  3IU7 A;  4U1B A;  4IF7 A;  1Y1N A;  4A6V A;  4IEC A;  2Q93 A;  2Q8K A;  5JHU A;  4PV4 A;  4HXX A;  2OKN A;  4FUK A;  1YJ3 A;  3IL0 A;  2BHC A;  1C24 A;  4U76 A;  2GG9 A;  5E2C A;  3BIQ A;  3D27 A;  3MX6 A;  4R60 A;  4S00 A;  5CLS A;  1YW8 A;  1QXW A;  1QZY A;  2GU4 A;  2V3Y A;  4PNC A;  4U69 A;  5D6E A;  4U73 A;  4FLI A;  4IPA A;  1XGS A;  4RZZ A;  2BHD A;  2HOW A;  2GU7 A;  3PEB A;  1PV9 A;  1YVM A;  3O5V A;  2GZ5 A;  1YW9 A;  3OVK A;  2B3H A;  2GG2 A;  4FO8 A;  4ZWU A;  4S2T P;  3TAV A;  2B3K A;  2EA2 A;  2GG5 A;  3ROR A;  3FM3 A;  5JI6 A;  2BWT A;  5CDV A;  2V3Z A;  4EGE A;  3OOO A;  3L24 A;  1WKM A;  4Z7M A;  4U70 A;  4FLL A;  4IDY A;  1C22 A;  1WBQ A;  3PKA A;  1KQ0 A;  1XGO A;  4FO7 A;  4IKR A;  2EA4 A;  3FMQ A;  2NQ7 A;  2Q94 A;  1B6A A;  1XGM A;  2OAZ A;  3CTZ A;  1A16 A;  1XGN A;  2G6P A;  3IU8 A;  4FLJ A;  1R5G A;  2BH3 A;  2BWS A;  4ZWO A;  3IU9 A;  3PKC A;  1WLR A;  2BWX A;  1KQ9 A;  3TB5 A;  4ZNG A;  1WY2 A;  2GGC A;  1QXY A;  2Q95 A;  3CB6 A;  2GG0 A;  1WN1 A;  2BB7 A;  3PKE A;  3QOC A;  2EVM A;  2ZSG A;  2GG7 A;  4IU6 A;  2V3X A;  4RGZ 1;  3S6B A;  2GU5 A;  1BOA A;  5D6F A;  2P98 A;  4U6W A;  4JUQ A;  2BWV A;  4U6E A;  1R5H A;  1C27 A;  3IG4 A;  5CIK A;  2BN7 A;  3RVA A;  3PN9 A;  2EVO A;  3I7M A;  2BWU A;  4U6Z A;  1W7V A;  4A6W A;  1YW7 A;  1KP0 A;  2Q92 A;  1XNZ A;  2P99 A;  3FMR A;  4S2R P;  2BWW A;  5FCF A;  4S01 A;  5JFR A;  1WL9 A;  5CDE A;  3MAT A;  4OOK A;  2GG8 A;  2ADU A;  3PKD A;  4U6C A;  4MAT A;  2GU6 A;  5CE6 A;  2BHB A;  3Q6D A;  2IW2 A;  3CB5 A;  4U75 A;  2DFI A;  4ZWP A;  1W2M A;  1R58 A;  1WL6 A;  1BN5 A;  1MAT A;  2MAT A;  4IKS A;  3L7G A;  5CDL A;  3MR1 A;  2B3L A;  1QXZ A;  1C23 A;  1JAW A;  2Q96 A;  1O0X A;  1CHM A;  4U6J A;  2GG3 A;  2GTX A;  5E5B A;  1N51 A;  4FLK A;  4IKT A;  3BIP A;  2V6C A;  3PKB A;  4IKU A;  2GGB A;  2BHA A;  2GA2 A;  4KM3 A;  1C21 A;  2EVC A;  4QR8 A;  4U71 A;  4B28 A; 
#chains in the Genus database with same CATH topology
 2P9A A;  2BWY A;  3BIT A;  4FKC A;  4RZY A;  1M35 A;  5CNX A;  5FCH A;  1B59 A;  2NQ6 A;  3IU7 A;  4U1B A;  4IF7 A;  1Y1N A;  4A6V A;  4IEC A;  2Q93 A;  2Q8K A;  5JHU A;  4PV4 A;  4HXX A;  2OKN A;  4FUK A;  1YJ3 A;  3IL0 A;  2BHC A;  1C24 A;  4U76 A;  2GG9 A;  5E2C A;  3BIQ A;  3D27 A;  3MX6 A;  4R60 A;  4S00 A;  5CLS A;  1YW8 A;  1QXW A;  1QZY A;  2GU4 A;  2V3Y A;  4PNC A;  4U69 A;  5D6E A;  4U73 A;  4FLI A;  4IPA A;  1XGS A;  4RZZ A;  2BHD A;  2HOW A;  2GU7 A;  3PEB A;  1PV9 A;  1YVM A;  3O5V A;  2GZ5 A;  1YW9 A;  3OVK A;  2B3H A;  2GG2 A;  4FO8 A;  4ZWU A;  4S2T P;  3TAV A;  2B3K A;  2EA2 A;  2GG5 A;  3ROR A;  3FM3 A;  5JI6 A;  2BWT A;  5CDV A;  2V3Z A;  4EGE A;  3OOO A;  3L24 A;  1WKM A;  4Z7M A;  4U70 A;  4FLL A;  4IDY A;  1C22 A;  1WBQ A;  3PKA A;  1KQ0 A;  1XGO A;  4FO7 A;  4IKR A;  2EA4 A;  3FMQ A;  2NQ7 A;  2Q94 A;  1B6A A;  1XGM A;  2OAZ A;  3CTZ A;  1A16 A;  1XGN A;  2G6P A;  3IU8 A;  4FLJ A;  1R5G A;  2BH3 A;  2BWS A;  4ZWO A;  3IU9 A;  3PKC A;  1WLR A;  2BWX A;  1KQ9 A;  3TB5 A;  4ZNG A;  1WY2 A;  2GGC A;  1QXY A;  2Q95 A;  3CB6 A;  2GG0 A;  1WN1 A;  2BB7 A;  3PKE A;  3QOC A;  2EVM A;  2ZSG A;  2GG7 A;  4IU6 A;  2V3X A;  4RGZ 1;  3S6B A;  2GU5 A;  1BOA A;  5D6F A;  2P98 A;  4U6W A;  4JUQ A;  2BWV A;  4U6E A;  1R5H A;  1C27 A;  3IG4 A;  5CIK A;  2BN7 A;  3RVA A;  3PN9 A;  2EVO A;  3I7M A;  2BWU A;  4U6Z A;  1W7V A;  4A6W A;  1YW7 A;  1KP0 A;  2Q92 A;  1XNZ A;  2P99 A;  3FMR A;  4S2R P;  2BWW A;  5FCF A;  4S01 A;  5JFR A;  1WL9 A;  5CDE A;  3MAT A;  4OOK A;  2GG8 A;  2ADU A;  3PKD A;  4U6C A;  4MAT A;  2GU6 A;  5CE6 A;  2BHB A;  3Q6D A;  2IW2 A;  3CB5 A;  4U75 A;  2DFI A;  4ZWP A;  1W2M A;  1R58 A;  1WL6 A;  1BN5 A;  1MAT A;  2MAT A;  4IKS A;  3L7G A;  5CDL A;  3MR1 A;  2B3L A;  1QXZ A;  1C23 A;  1JAW A;  2Q96 A;  1O0X A;  1CHM A;  4U6J A;  2GG3 A;  2GTX A;  5E5B A;  1N51 A;  4FLK A;  4IKT A;  3BIP A;  2V6C A;  3PKB A;  4IKU A;  2GGB A;  2BHA A;  2GA2 A;  4KM3 A;  1C21 A;  2EVC A;  4QR8 A;  4U71 A;  4B28 A; 
#chains in the Genus database with same CATH homology
 2P9A A;  2BWY A;  3BIT A;  4FKC A;  4RZY A;  1M35 A;  5CNX A;  5FCH A;  1B59 A;  2NQ6 A;  3IU7 A;  4U1B A;  4IF7 A;  1Y1N A;  4A6V A;  4IEC A;  2Q93 A;  2Q8K A;  5JHU A;  4PV4 A;  4HXX A;  2OKN A;  4FUK A;  1YJ3 A;  3IL0 A;  2BHC A;  1C24 A;  4U76 A;  2GG9 A;  5E2C A;  3BIQ A;  3D27 A;  3MX6 A;  4R60 A;  4S00 A;  5CLS A;  1YW8 A;  1QXW A;  1QZY A;  2GU4 A;  2V3Y A;  4PNC A;  4U69 A;  5D6E A;  4U73 A;  4FLI A;  4IPA A;  1XGS A;  4RZZ A;  2BHD A;  2HOW A;  2GU7 A;  3PEB A;  1PV9 A;  1YVM A;  3O5V A;  2GZ5 A;  1YW9 A;  3OVK A;  2B3H A;  2GG2 A;  4FO8 A;  4ZWU A;  4S2T P;  3TAV A;  2B3K A;  2EA2 A;  2GG5 A;  3ROR A;  3FM3 A;  5JI6 A;  2BWT A;  5CDV A;  2V3Z A;  4EGE A;  3OOO A;  3L24 A;  1WKM A;  4Z7M A;  4U70 A;  4FLL A;  4IDY A;  1C22 A;  1WBQ A;  3PKA A;  1KQ0 A;  1XGO A;  4FO7 A;  4IKR A;  2EA4 A;  3FMQ A;  2NQ7 A;  2Q94 A;  1B6A A;  1XGM A;  2OAZ A;  3CTZ A;  1A16 A;  1XGN A;  2G6P A;  3IU8 A;  4FLJ A;  1R5G A;  2BH3 A;  2BWS A;  4ZWO A;  3IU9 A;  3PKC A;  1WLR A;  2BWX A;  1KQ9 A;  3TB5 A;  4ZNG A;  1WY2 A;  2GGC A;  1QXY A;  2Q95 A;  3CB6 A;  2GG0 A;  1WN1 A;  2BB7 A;  3PKE A;  3QOC A;  2EVM A;  2ZSG A;  2GG7 A;  4IU6 A;  2V3X A;  4RGZ 1;  3S6B A;  2GU5 A;  1BOA A;  5D6F A;  2P98 A;  4U6W A;  4JUQ A;  2BWV A;  4U6E A;  1R5H A;  1C27 A;  3IG4 A;  5CIK A;  2BN7 A;  3RVA A;  3PN9 A;  2EVO A;  3I7M A;  2BWU A;  4U6Z A;  1W7V A;  4A6W A;  1YW7 A;  1KP0 A;  2Q92 A;  1XNZ A;  2P99 A;  3FMR A;  4S2R P;  2BWW A;  5FCF A;  4S01 A;  5JFR A;  1WL9 A;  5CDE A;  3MAT A;  4OOK A;  2GG8 A;  2ADU A;  3PKD A;  4U6C A;  4MAT A;  2GU6 A;  5CE6 A;  2BHB A;  3Q6D A;  2IW2 A;  3CB5 A;  4U75 A;  2DFI A;  4ZWP A;  1W2M A;  1R58 A;  1WL6 A;  1BN5 A;  1MAT A;  2MAT A;  4IKS A;  3L7G A;  5CDL A;  3MR1 A;  2B3L A;  1QXZ A;  1C23 A;  1JAW A;  2Q96 A;  1O0X A;  1CHM A;  4U6J A;  2GG3 A;  2GTX A;  5E5B A;  1N51 A;  4FLK A;  4IKT A;  3BIP A;  2V6C A;  3PKB A;  4IKU A;  2GGB A;  2BHA A;  2GA2 A;  4KM3 A;  1C21 A;  2EVC A;  4QR8 A;  4U71 A;  4B28 A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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