4RZYA

Crystal structure of metallopeptidase-like dimethylsulphoniopropionate (dmsp) lyase rldddp in complex with mes
Total Genus 157
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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
157
sequence length
439
structure length
439
Chain Sequence
b'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 keywords Peptidase M24
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
source organism Silicibacter lacuscaerulensis
molecule tags Lyase
total genus 157
structure length 439
sequence length 439
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2014-12-26

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 4rzyA01
3.90.230.10 Alpha Beta Alpha-Beta Complex Creatine Amidinohydrolase Creatinase/methionine aminopeptidase superfamily 4rzyA02
3FMQA 4U6CA 2GU5A 5FCHA 3MX6A 2BHAA 1QXWA 3QOCA 2Q94A 4RZYA 4FO8A 1C27A 4A6WA 5CLSA 2V3XA 3S6BA 1KQ0A 2GG5A 2GTXA 4U6JA 2BWWA 1C21A 2Q93A 1R5GA 1YJ3A 3IL0A 1KP0A 2V6CA 3PKCA 4S2RP 4PNCA 3MR1A 1QZYA 4U6ZA 2Q8KA 4JUQA 4U75A 2MATA 4IECA 3TAVA 2BWXA 2GG2A 2BHBA 4KM3A 5JHUA 2GG0A 4FO7A 2GA2A 1XGNA 4U6WA 2BHDA 1QXYA 1WL6A 4IKTA 1C23A 1BN5A 4U76A 2P98A 4ZWPA 5E2CA 2EVMA 2NQ6A 1WBQA 2BHCA 2GU4A 4FLKA 2GG3A 4S01A 4IKSA 3PKDA 4U73A 2ADUA 1N51A 3L24A 4B28A 1JAWA 5CDVA 1C24A 3CB6A 4RGZ1 2BB7A 4U70A 4OOKA 2BWYA 4RZZA 5CDEA 1C22A 5D6EA 3IU9A 3OOOA 4IF7A 1YW8A 4EGEA 3PKEA 1XGOA 4FLJA 3FM3A 2GG7A 2EVOA 1M35A 3L7GA 2Q92A 3IU8A 2V3YA 2EA2A 2GU6A 2BWSA 1YW7A 4FLLA 1WKMA 2EVCA 4HXXA 4IDYA 3RVAA 4QR8A 1WY2A 4FLIA 3CTZA 2P99A 2Q95A 4ZWUA 2BWVA 5CDLA 2BN7A 1XNZA 1CHMA 1YVMA 4R60A 1R58A 4PV4A 1YW9A 3PKAA 2P9AA 2BWTA 1B59A 1B6AA 4A6VA 4IKUA 4U71A 1PV9A 1WN1A 3CB5A 1WL9A 3BIQA 2GU7A 3PN9A 2GZ5A 4U6EA 5E5BA 1O0XA 2GG9A 4IPAA 2DFIA 3IG4A 5CNXA 1W2MA 1KQ9A 1Y1NA 1R5HA 2B3HA 3O5VA 4IKRA 3I7MA 3FMRA 1WLRA 1BOAA 1A16A 2B3LA 4ZWOA 2GG8A 2NQ7A 1MATA 5CIKA 2Q96A 2OKNA 2EA4A 4IU6A 1XGSA 2ZSGA 2OAZA 2V3ZA 3PEBA 3MATA 3TB5A 5D6FA 5JFRA 3BIPA 4MATA 2BWUA 1W7VA 4U69A 5JI6A 1XGMA 2G6PA 5CE6A 2GGCA 3BITA 3D27A 4S00A 2IW2A 3OVKA 4FKCA 4ZNGA 1QXZA 4U1BA 3PKBA 4Z7MA 2GGBA 4FUKA 5FCFA 3RORA 2B3KA 3Q6DA 2HOWA 3IU7A 4S2TP 2BH3A
chains in the Genus database with same CATH superfamily
3FMQA 4U6CA 2GU5A 5FCHA 3MX6A 2BHAA 1QXWA 3QOCA 2Q94A 4RZYA 4FO8A 1C27A 4A6WA 5CLSA 2V3XA 3S6BA 1KQ0A 2GG5A 2GTXA 4U6JA 2BWWA 1C21A 2Q93A 1R5GA 1YJ3A 3IL0A 1KP0A 2V6CA 3PKCA 4S2RP 4PNCA 3MR1A 1QZYA 4U6ZA 2Q8KA 4JUQA 4U75A 2MATA 4IECA 3TAVA 2BWXA 2GG2A 2BHBA 4KM3A 5JHUA 2GG0A 4FO7A 2GA2A 1XGNA 4U6WA 2BHDA 1QXYA 1WL6A 4IKTA 1C23A 1BN5A 4U76A 2P98A 4ZWPA 5E2CA 2EVMA 2NQ6A 1WBQA 2BHCA 2GU4A 4FLKA 2GG3A 4S01A 4IKSA 3PKDA 4U73A 2ADUA 1N51A 3L24A 4B28A 1JAWA 5CDVA 1C24A 3CB6A 4RGZ1 2BB7A 4U70A 4OOKA 2BWYA 4RZZA 5CDEA 1C22A 5D6EA 3IU9A 3OOOA 4IF7A 1YW8A 4EGEA 3PKEA 1XGOA 4FLJA 3FM3A 2GG7A 2EVOA 1M35A 3L7GA 2Q92A 3IU8A 2V3YA 2EA2A 2GU6A 2BWSA 1YW7A 4FLLA 1WKMA 2EVCA 4HXXA 4IDYA 3RVAA 4QR8A 1WY2A 4FLIA 3CTZA 2P99A 2Q95A 4ZWUA 2BWVA 5CDLA 2BN7A 1XNZA 1CHMA 1YVMA 4R60A 1R58A 4PV4A 1YW9A 3PKAA 2P9AA 2BWTA 1B59A 1B6AA 4A6VA 4IKUA 4U71A 1PV9A 1WN1A 3CB5A 1WL9A 3BIQA 2GU7A 3PN9A 2GZ5A 4U6EA 5E5BA 1O0XA 2GG9A 4IPAA 2DFIA 3IG4A 5CNXA 1W2MA 1KQ9A 1Y1NA 1R5HA 2B3HA 3O5VA 4IKRA 3I7MA 3FMRA 1WLRA 1BOAA 1A16A 2B3LA 4ZWOA 2GG8A 2NQ7A 1MATA 5CIKA 2Q96A 2OKNA 2EA4A 4IU6A 1XGSA 2ZSGA 2OAZA 2V3ZA 3PEBA 3MATA 3TB5A 5D6FA 5JFRA 3BIPA 4MATA 2BWUA 1W7VA 4U69A 5JI6A 1XGMA 2G6PA 5CE6A 2GGCA 3BITA 3D27A 4S00A 2IW2A 3OVKA 4FKCA 4ZNGA 1QXZA 4U1BA 3PKBA 4Z7MA 2GGBA 4FUKA 5FCFA 3RORA 2B3KA 3Q6DA 2HOWA 3IU7A 4S2TP 2BH3A
chains in the Genus database with same CATH topology
3FMQA 4U6CA 2GU5A 5FCHA 3MX6A 2BHAA 1QXWA 3QOCA 2Q94A 4RZYA 4FO8A 1C27A 4A6WA 5CLSA 2V3XA 3S6BA 1KQ0A 2GG5A 2GTXA 4U6JA 2BWWA 1C21A 2Q93A 1R5GA 1YJ3A 3IL0A 1KP0A 2V6CA 3PKCA 4S2RP 4PNCA 3MR1A 1QZYA 4U6ZA 2Q8KA 4JUQA 4U75A 2MATA 4IECA 3TAVA 2BWXA 2GG2A 2BHBA 4KM3A 5JHUA 2GG0A 4FO7A 2GA2A 1XGNA 4U6WA 2BHDA 1QXYA 1WL6A 4IKTA 1C23A 1BN5A 4U76A 2P98A 4ZWPA 5E2CA 2EVMA 2NQ6A 1WBQA 2BHCA 2GU4A 4FLKA 2GG3A 4S01A 4IKSA 3PKDA 4U73A 2ADUA 1N51A 3L24A 4B28A 1JAWA 5CDVA 1C24A 3CB6A 4RGZ1 2BB7A 4U70A 4OOKA 2BWYA 4RZZA 5CDEA 1C22A 5D6EA 3IU9A 3OOOA 4IF7A 1YW8A 4EGEA 3PKEA 1XGOA 4FLJA 3FM3A 2GG7A 2EVOA 1M35A 3L7GA 2Q92A 3IU8A 2V3YA 2EA2A 2GU6A 2BWSA 1YW7A 4FLLA 1WKMA 2EVCA 4HXXA 4IDYA 3RVAA 4QR8A 1WY2A 4FLIA 3CTZA 2P99A 2Q95A 4ZWUA 2BWVA 5CDLA 2BN7A 1XNZA 1CHMA 1YVMA 4R60A 1R58A 4PV4A 1YW9A 3PKAA 2P9AA 2BWTA 1B59A 1B6AA 4A6VA 4IKUA 4U71A 1PV9A 1WN1A 3CB5A 1WL9A 3BIQA 2GU7A 3PN9A 2GZ5A 4U6EA 5E5BA 1O0XA 2GG9A 4IPAA 2DFIA 3IG4A 5CNXA 1W2MA 1KQ9A 1Y1NA 1R5HA 2B3HA 3O5VA 4IKRA 3I7MA 3FMRA 1WLRA 1BOAA 1A16A 2B3LA 4ZWOA 2GG8A 2NQ7A 1MATA 5CIKA 2Q96A 2OKNA 2EA4A 4IU6A 1XGSA 2ZSGA 2OAZA 2V3ZA 3PEBA 3MATA 3TB5A 5D6FA 5JFRA 3BIPA 4MATA 2BWUA 1W7VA 4U69A 5JI6A 1XGMA 2G6PA 5CE6A 2GGCA 3BITA 3D27A 4S00A 2IW2A 3OVKA 4FKCA 4ZNGA 1QXZA 4U1BA 3PKBA 4Z7MA 2GGBA 4FUKA 5FCFA 3RORA 2B3KA 3Q6DA 2HOWA 3IU7A 4S2TP 2BH3A
chains in the Genus database with same CATH homology


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