1YCL | Genus

Total Genus 44

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

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

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

Genus data interpretation

Chord Diagram

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	Class	Architecture	Topology	Homology	Domain
3.30.1360.80	Alpha Beta	2-Layer Sandwich	Gyrase A; domain 2	S-ribosylhomocysteinase (LuxS)	1yclA00

4XCHA 1VJEA 1J98A 1INNA 1JVIA 1YCLA 2FQTA 1J6XA 1J6VA 1VGXA 1IE0A 1J6WA 1VH2A 1JQWA 1JOEA 5E68A 2FQOA
chains in the Genus database with same CATH superfamily

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

4XCHA 1VJEA 1J98A 1INNA 1JVIA 1YCLA 2FQTA 1J6XA 1J6VA 1VGXA 1IE0A 1J6WA 1VH2A 1JQWA 1JOEA 5E68A 2FQOA
chains in the Genus database with same CATH homology

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations