1YCLA

Crystal structure of b. subtilis luxs in complex with a catalytic 2-ketone intermediate
Total Genus 44
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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
44
sequence length
154
structure length
154
Chain Sequence
VESFELDHNAVVAPYVRHCGVHKVGTDGVVNKFDIRFCQPNKQAMKPDTIHTLEHLLAFTIRSHAEKYDHFDIIDISPMGAQTGYYLVVSGEPTSAEIVDLLEDTMKEAVEITEIPAANEKQCGQAKLHDLEGAKRLMRFWLSQDKEELLKVFG
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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.

Chord Diagram
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molecule keywords S-ribosylhomocysteinase
publication title Crystal Structure of S-Ribosylhomocysteinase (LuxS) in Complex with a Catalytic 2-Ketone Intermediate.
pubmed doi rcsb
source organism Bacillus subtilis
molecule tags Hydrolase
total genus 44
structure length 154
sequence length 154
ec nomenclature ec 4.4.1.21: S-ribosylhomocysteine lyase.
pdb deposition date 2004-12-22

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02664 LuxS S-Ribosylhomocysteinase (LuxS)
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1360.80 Alpha Beta 2-Layer Sandwich Gyrase A; domain 2 S-ribosylhomocysteinase (LuxS) 1yclA00
1J6VA 1VGXA 1J98A 1IE0A 1JQWA 1INNA 1YCLA 1VH2A 2FQOA 2FQTA 5E68A 1J6WA 1JVIA 1VJEA 4XCHA 1JOEA 1J6XA
chains in the Genus database with same CATH superfamily
1I3QC 2CFAB 4G0WA 3SZYA 4C3JK 3FOEA 3S15K 3I4NC 4A3FC 1WIHA 1TWCA 2WB1L 2RH6A 3RZDC 2P5MA 4LR2A 4A3MK 5IYDC 4A3DC 1USOA 3AD7C 2E2JK 2YU9A 3CQZC 3H3VD 1I6VA 3GTKC 2R7ZA 1YNJA 1DD5A 3HOVC 2YU9K 5M5YK 1XXCA 3S1RK 4LJZA 4KN4A 2NVYK 1TWCC 4KMUA 3GTPK 4BY1K 3M4OC 2KWAA 4BBSC 4DDQA 2GAGC 1O29A 2E2IC 2ZUFA 3ADAC 3FHZA 1Y1VK 5HL8A 1JQWA 4X6AK 1INNA 3N0CA 3A8IA 4KMDA 5IYCC 4C45A 2V6TA 3S17K 2ZUEA 1EI6A 4QIWD 4Q5SA 5EGHA 4GTDA 1YCLA 1XZPB 4P5BA 2JA8K 1VJEA 3GTOC 3DXJA 1EH1A 3PO2K 3GTJC 4A3KC 1O2AA 1O25A 5TJ3A 4J3NA 3TTGA 3HOXC 1TWAC 5M3FK 4KB2A 3MMLB 2XCOA 4KC6A 3N3YA 4GZYA 4A3JK 5C3EK 5D4DA 4XLNA 1TWGA 4XSXA 4WJ3M 2JH3A 3S14K 3S1NC 3GDZA 1TWHC 3AD8C 3M3YC 1PJ5A 4C3HC 2R92C 2A69A 3FKIA 1F93A 1TWGC 3V4GA 4ZH4A 1IS1A 1O28A 3FKIK 2B63K 4KATA 2VUMK 1B4BA 4OIPA 2JA5A 2E2HA 3GTMA 1B4AA 3VA7A 4A3CC 2V6UA 3LAJA 3S2DC 4Y52K 3T01A 5JFEA 3RZOC 5IP9K 5IP7K 3LAPA 2JA6A 1XPPA 1BDFA 4NOIA 5CHPA 2GSNA 2JA6K 4YFKA 1SFOK 1WOSA 4XLPA 5FJ8K 4AH6A 4XCHA 1EFWA 2JA7A 5M5WK 1IL2A 2RGRA 4A93C 4BBRC 4KMHA 3GTLA 4GT9A 2R93K 1TWFA 3S16C 1TWFK 4O2DA 4BKWA 5L46A 4GTCA 3JSTA 1IBAA 3FOFA 4G7HA 1WCMC 1C0AA 3GTLC 4A3GC 5C44C 1R9TA 1EK8A 1WQHA 1J98A 2FQOA 4C3IC 1R9TK 3S1QK 1YNNA 3S15C 3HOZC 4GFQA 3HKZL 1Y1WK 5IYDK 2NVYA 3GTPA 4G7ZA 3GTKK 3HOVK 3LPXA 5IYBK 1WOOA 2YU9C 2R7ZC 1WSRA 3N0BA 3S1RC 1Y1VA 1AB4A 4LK0A 4BBSK 1X31C 1I50A 5C4JK 4BY1C 1WSVA 1I50K 1G51A 2XCRB 4A3EK 4KB4A 3IPJA 3SZZA 1BGWA 4LLGA 1ZYRA 4KM8A 3S0XA 1Y1VC 1DCHA 3G4AA 4X6AC 3S17C 1YX2A 4KMAA 3GTOK 1UV7A 4AYBD 4MEYA 3HOWK 3AQPA 4YFNA 4BY7K 4XSZA 3GTJK 3GTQK 2ZFZA 5FLMC 3L4JA 3ERED 3S2HC 2A68A 4PAAA 2W7VA 5EGEA 3PO2C 3HOYC 4KASA 4FM9A 1F7UA 1XXBA 3K7AC 1I6HK 2GAHC 5IOTA 3EQLA 2A6EA 1ZVUA 2PA8D 4A3JC 3S1MK 5C3EC 4FZBA 1XZQB 3S1NK 2B63A 4WILA 3H0GA 2VUMA 2PMZL 3H0GK 1IE0A 3S14C 4C3HK 1O24A 3OREA 1BJTA 1O27A 3L4KA 4A3LC 2NVTK 1O26A 4G7OA 4GTAA 2EBBA 1J6VA 4BLBA 5JVOA 2FQTA 3FKIC 3HOUK 4A3CK 3T00A 4A3IK 2JA5C 4P5AA 4A3BC 1EQRA 3AQOA 3HKZD 4AYBL 2E2HC 5C4XK 3S2DK 1HI9A 3RZOK 3GTMC 1SFOA 3GTGA 2NVXA 4BXXC 5TMCA 2D6FC 3GIRA 4Y52C 5M3MK 5M5XK 2NVXK 3GTGK 5IP9C 4C2MK 5IP7C 4Y7NK 3PO3C 4GTEA 1L0WA 1K83A 1ISEA 1VRQC 4G0VA 4PABA 1PJ7A 3A8KA 3I4MK 1K83K 2R93A 4LQYA 2JA6C 2PA8L 1XXAA 4ILDA 1JOEA 4GTLA 2NVQC 1IW7A 2JA7C 2GSUA 4MQ9A 1GE9A 1I3QA 2WAQD 2R93C 1XZQA 1I3QK 1TWFC 4P9SA 1WCMK 1O2BA 3I4NK 4A3FK 4C3JC 3Q3QA 3CAGA 3GEHA 5C44K 3RZDK 1Y1WA 3CQZA 3GTKA 4C3IK 1KQ4A 1O2FB 4A3DK 1V5VA 3CQZK 4RMFA 3HOZK 4A3MC 1R9TC 2E2JC 3S1QC 2PPBA 5IOQA 4Q4ZA 1TWCK 4M1XA 3OPFA 3GEEA 1Y1WC 1PJ6A 3M4OK 1DCPA 1USMA 2PMZD 2E2IA 3T02A 2NVYC 3GTPC 2R7ZK 4OIQA 1F7VA 2E2IK 5IYBC 4KAWX 4WJ4A 5TMFA 4YFXA 2CW0A 4YG2A 5E68A 5IYCK 5IORA 4MEXA 2Y3PA 1ZQ1C 2WAQL 2Y0SD 5C4JC 3GTOA 3HXAA 1WQFA 1I50C 4A3EC 3GTJA 4QJVB 3GTQA 1IQ0A 1TWAA 2JA8C 4A3KK 2A6HA 3WODA 4KDDA 3HOXK 1TWAK 5IOSA 3GSIA 1WORA 3BUEA 5FLMK 3S2HK 3HOWC 4BY7C 3G4CA 3GTQC 3HOYK 1F9NA 1VH2A 2PHCB 1TWHA 1VLOA 4GTBA 3K7AK 1DCOA 2CFAA 1TWHK 1VGXA 2R92A 3M3YK 3H3VL 1J6WA 1ZXOA 3BP8C 2R92K 1I6HC 1WOPA 4LK1A 1BS2A 3TFHA 1TWGK 3S1MC 2GSOA 3AH5A 3NUHA 4OIOA 2P8TA 2V6SA 4KARA 2B63C 3H0GC 4KM9A 2VUMC 4A3LK 1HQMA 2Y0SL 4OINA 3TFIA 3A8JA 2NVTC 2O5IA 5CJ9A 2O5JA 3QX3A 2JA5K 4A3BK 3TFJA 1WQGA 3GEIA 4QIWL 2E2HK 2BE5A 3BP3A 3HOUC 2WB1D 4BLAA 4A3IC 4QJVA 3GTMK 4BXXK 3OEPA 5C4XC 4JK1A 2XCQA 3PO3K 1SFOC 2NVXC 3GTGC 3AD9C 1XZPA 4A93K 4C2MC 4BBRK 4Y7NC 4G0UA 1RU0A 3I4MC 1K83C 3S16K 4KN7A 1ZBSA 2NVQK 4OIRA 2JA7K 1WCMA 1JVIA 1SMYA 1J6XA 3GTLK 4GTFA 4A3GK 4LOWA
chains in the Genus database with same CATH topology
1J6VA 1VGXA 1J98A 1IE0A 1JQWA 1INNA 1YCLA 1VH2A 2FQOA 2FQTA 5E68A 1J6WA 1JVIA 1VJEA 4XCHA 1JOEA 1J6XA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1J6V A;  1VGX A;  1J98 A;  1IE0 A;  1JQW A;  1INN A;  1YCL A;  1VH2 A;  2FQO A;  2FQT A;  5E68 A;  1J6W A;  1JVI A;  1VJE A;  4XCH A;  1JOE A;  1J6X A; 
#chains in the Genus database with same CATH topology
 1I3Q C;  2CFA B;  4G0W A;  3SZY A;  4C3J K;  3FOE A;  3S15 K;  3I4N C;  4A3F C;  1WIH A;  1TWC A;  2WB1 L;  2RH6 A;  3RZD C;  2P5M A;  4LR2 A;  4A3M K;  5IYD C;  4A3D C;  1USO A;  3AD7 C;  2E2J K;  2YU9 A;  3CQZ C;  3H3V D;  1I6V A;  3GTK C;  2R7Z A;  1YNJ A;  1DD5 A;  3HOV C;  2YU9 K;  5M5Y K;  1XXC A;  3S1R K;  4LJZ A;  4KN4 A;  2NVY K;  1TWC C;  4KMU A;  3GTP K;  4BY1 K;  3M4O C;  2KWA A;  4BBS C;  4DDQ A;  2GAG C;  1O29 A;  2E2I C;  2ZUF A;  3ADA C;  3FHZ A;  1Y1V K;  5HL8 A;  1JQW A;  4X6A K;  1INN A;  3N0C A;  3A8I A;  4KMD A;  5IYC C;  4C45 A;  2V6T A;  3S17 K;  2ZUE A;  1EI6 A;  4QIW D;  4Q5S A;  5EGH A;  4GTD A;  1YCL A;  1XZP B;  4P5B A;  2JA8 K;  1VJE A;  3GTO C;  3DXJ A;  1EH1 A;  3PO2 K;  3GTJ C;  4A3K C;  1O2A A;  1O25 A;  5TJ3 A;  4J3N A;  3TTG A;  3HOX C;  1TWA C;  5M3F K;  4KB2 A;  3MML B;  2XCO A;  4KC6 A;  3N3Y A;  4GZY A;  4A3J K;  5C3E K;  5D4D A;  4XLN A;  1TWG A;  4XSX A;  4WJ3 M;  2JH3 A;  3S14 K;  3S1N C;  3GDZ A;  1TWH C;  3AD8 C;  3M3Y C;  1PJ5 A;  4C3H C;  2R92 C;  2A69 A;  3FKI A;  1F93 A;  1TWG C;  3V4G A;  4ZH4 A;  1IS1 A;  1O28 A;  3FKI K;  2B63 K;  4KAT A;  2VUM K;  1B4B A;  4OIP A;  2JA5 A;  2E2H A;  3GTM A;  1B4A A;  3VA7 A;  4A3C C;  2V6U A;  3LAJ A;  3S2D C;  4Y52 K;  3T01 A;  5JFE A;  3RZO C;  5IP9 K;  5IP7 K;  3LAP A;  2JA6 A;  1XPP A;  1BDF A;  4NOI A;  5CHP A;  2GSN A;  2JA6 K;  4YFK A;  1SFO K;  1WOS A;  4XLP A;  5FJ8 K;  4AH6 A;  4XCH A;  1EFW A;  2JA7 A;  5M5W K;  1IL2 A;  2RGR A;  4A93 C;  4BBR C;  4KMH A;  3GTL A;  4GT9 A;  2R93 K;  1TWF A;  3S16 C;  1TWF K;  4O2D A;  4BKW A;  5L46 A;  4GTC A;  3JST A;  1IBA A;  3FOF A;  4G7H A;  1WCM C;  1C0A A;  3GTL C;  4A3G C;  5C44 C;  1R9T A;  1EK8 A;  1WQH A;  1J98 A;  2FQO A;  4C3I C;  1R9T K;  3S1Q K;  1YNN A;  3S15 C;  3HOZ C;  4GFQ A;  3HKZ L;  1Y1W K;  5IYD K;  2NVY A;  3GTP A;  4G7Z A;  3GTK K;  3HOV K;  3LPX A;  5IYB K;  1WOO A;  2YU9 C;  2R7Z C;  1WSR A;  3N0B A;  3S1R C;  1Y1V A;  1AB4 A;  4LK0 A;  4BBS K;  1X31 C;  1I50 A;  5C4J K;  4BY1 C;  1WSV A;  1I50 K;  1G51 A;  2XCR B;  4A3E K;  4KB4 A;  3IPJ A;  3SZZ A;  1BGW A;  4LLG A;  1ZYR A;  4KM8 A;  3S0X A;  1Y1V C;  1DCH A;  3G4A A;  4X6A C;  3S17 C;  1YX2 A;  4KMA A;  3GTO K;  1UV7 A;  4AYB D;  4MEY A;  3HOW K;  3AQP A;  4YFN A;  4BY7 K;  4XSZ A;  3GTJ K;  3GTQ K;  2ZFZ A;  5FLM C;  3L4J A;  3ERE D;  3S2H C;  2A68 A;  4PAA A;  2W7V A;  5EGE A;  3PO2 C;  3HOY C;  4KAS A;  4FM9 A;  1F7U A;  1XXB A;  3K7A C;  1I6H K;  2GAH C;  5IOT A;  3EQL A;  2A6E A;  1ZVU A;  2PA8 D;  4A3J C;  3S1M K;  5C3E C;  4FZB A;  1XZQ B;  3S1N K;  2B63 A;  4WIL A;  3H0G A;  2VUM A;  2PMZ L;  3H0G K;  1IE0 A;  3S14 C;  4C3H K;  1O24 A;  3ORE A;  1BJT A;  1O27 A;  3L4K A;  4A3L C;  2NVT K;  1O26 A;  4G7O A;  4GTA A;  2EBB A;  1J6V A;  4BLB A;  5JVO A;  2FQT A;  3FKI C;  3HOU K;  4A3C K;  3T00 A;  4A3I K;  2JA5 C;  4P5A A;  4A3B C;  1EQR A;  3AQO A;  3HKZ D;  4AYB L;  2E2H C;  5C4X K;  3S2D K;  1HI9 A;  3RZO K;  3GTM C;  1SFO A;  3GTG A;  2NVX A;  4BXX C;  5TMC A;  2D6F C;  3GIR A;  4Y52 C;  5M3M K;  5M5X K;  2NVX K;  3GTG K;  5IP9 C;  4C2M K;  5IP7 C;  4Y7N K;  3PO3 C;  4GTE A;  1L0W A;  1K83 A;  1ISE A;  1VRQ C;  4G0V A;  4PAB A;  1PJ7 A;  3A8K A;  3I4M K;  1K83 K;  2R93 A;  4LQY A;  2JA6 C;  2PA8 L;  1XXA A;  4ILD A;  1JOE A;  4GTL A;  2NVQ C;  1IW7 A;  2JA7 C;  2GSU A;  4MQ9 A;  1GE9 A;  1I3Q A;  2WAQ D;  2R93 C;  1XZQ A;  1I3Q K;  1TWF C;  4P9S A;  1WCM K;  1O2B A;  3I4N K;  4A3F K;  4C3J C;  3Q3Q A;  3CAG A;  3GEH A;  5C44 K;  3RZD K;  1Y1W A;  3CQZ A;  3GTK A;  4C3I K;  1KQ4 A;  1O2F B;  4A3D K;  1V5V A;  3CQZ K;  4RMF A;  3HOZ K;  4A3M C;  1R9T C;  2E2J C;  3S1Q C;  2PPB A;  5IOQ A;  4Q4Z A;  1TWC K;  4M1X A;  3OPF A;  3GEE A;  1Y1W C;  1PJ6 A;  3M4O K;  1DCP A;  1USM A;  2PMZ D;  2E2I A;  3T02 A;  2NVY C;  3GTP C;  2R7Z K;  4OIQ A;  1F7V A;  2E2I K;  5IYB C;  4KAW X;  4WJ4 A;  5TMF A;  4YFX A;  2CW0 A;  4YG2 A;  5E68 A;  5IYC K;  5IOR A;  4MEX A;  2Y3P A;  1ZQ1 C;  2WAQ L;  2Y0S D;  5C4J C;  3GTO A;  3HXA A;  1WQF A;  1I50 C;  4A3E C;  3GTJ A;  4QJV B;  3GTQ A;  1IQ0 A;  1TWA A;  2JA8 C;  4A3K K;  2A6H A;  3WOD A;  4KDD A;  3HOX K;  1TWA K;  5IOS A;  3GSI A;  1WOR A;  3BUE A;  5FLM K;  3S2H K;  3HOW C;  4BY7 C;  3G4C A;  3GTQ C;  3HOY K;  1F9N A;  1VH2 A;  2PHC B;  1TWH A;  1VLO A;  4GTB A;  3K7A K;  1DCO A;  2CFA A;  1TWH K;  1VGX A;  2R92 A;  3M3Y K;  3H3V L;  1J6W A;  1ZXO A;  3BP8 C;  2R92 K;  1I6H C;  1WOP A;  4LK1 A;  1BS2 A;  3TFH A;  1TWG K;  3S1M C;  2GSO A;  3AH5 A;  3NUH A;  4OIO A;  2P8T A;  2V6S A;  4KAR A;  2B63 C;  3H0G C;  4KM9 A;  2VUM C;  4A3L K;  1HQM A;  2Y0S L;  4OIN A;  3TFI A;  3A8J A;  2NVT C;  2O5I A;  5CJ9 A;  2O5J A;  3QX3 A;  2JA5 K;  4A3B K;  3TFJ A;  1WQG A;  3GEI A;  4QIW L;  2E2H K;  2BE5 A;  3BP3 A;  3HOU C;  2WB1 D;  4BLA A;  4A3I C;  4QJV A;  3GTM K;  4BXX K;  3OEP A;  5C4X C;  4JK1 A;  2XCQ A;  3PO3 K;  1SFO C;  2NVX C;  3GTG C;  3AD9 C;  1XZP A;  4A93 K;  4C2M C;  4BBR K;  4Y7N C;  4G0U A;  1RU0 A;  3I4M C;  1K83 C;  3S16 K;  4KN7 A;  1ZBS A;  2NVQ K;  4OIR A;  2JA7 K;  1WCM A;  1JVI A;  1SMY A;  1J6X A;  3GTL K;  4GTF A;  4A3G K;  4LOW A; 
#chains in the Genus database with same CATH homology
 1J6V A;  1VGX A;  1J98 A;  1IE0 A;  1JQW A;  1INN A;  1YCL A;  1VH2 A;  2FQO A;  2FQT A;  5E68 A;  1J6W A;  1JVI A;  1VJE A;  4XCH A;  1JOE A;  1J6X 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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#similar chains in the pdb database (?% sequence similarity)
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