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


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