4MDTA

Structure of lpxc bound to the reaction product udp-(3-o-(r-3-hydroxymyristoyl))-glucosamine
Total Genus 91
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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
91
sequence length
300
structure length
300
Chain Sequence
MIKQRTLKRIVQATGVGLHTGKKVTLTLRPAPANTGVIYRRTDLNPPVDFPADAKSVRDTMLCTCLVNEHDVRISTVEHLNAALAGLGIDNIVIEVNAPEIPIMDGSAAPFVYLLLDAGIDELNSAKKFVRIKETVRVEDGDKWAEFKPYNGFSLDFTIDFNHPAIDSSNQRYAMNFSADAFMRQISRARTFGFMRDIEYLQSRGLCLGGSFDCAIVVDDYRVLNEDGLRFEDEFVRHKMLDAIGDLFMCGHNIIGAFTAYKSGHALNNKLLQAVLAKQEAWEYVTFQDDAELPLAFKAP
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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 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase
publication title Structure of the Bacterial Deacetylase LpxC Bound to the Nucleotide Reaction Product Reveals Mechanisms of Oxyanion Stabilization and Proton Transfer.
pubmed doi rcsb
source organism Escherichia coli
molecule tags Hydrolase
total genus 91
structure length 300
sequence length 300
chains with identical sequence B, C, D
ec nomenclature ec 3.5.1.-:
pdb deposition date 2013-08-23
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.230.20 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5; domain 2 lpxc deacetylase, domain 1 4mdtA01
3.30.1700.10 Alpha Beta 2-Layer Sandwich lpxc deacetylase, domain 1 lpxc deacetylase, domain 2 4mdtA02
3NZKA 4OZEA 1YHCA 4IS9A 1P42A 4OKGA 3P3EA 2GO4A 2IESA 4LCHA 4FW4A 4U3BA 3P3GA 1YH8A 3UHMA 4FW6A 2J65A 4MQYA 2O3ZA 5DRPA 4LCFA 4U3DA 2VESA 3PS1A 4FW7A 4ISAA 5DRRA 2GO3A 4MDTA 5DROA 2IERA 3P76A 4FW3A 3PS3A 3P3CA 4J3DA 2JT2A 4LCGA 4FW5A 1XXEA 5DRQA 3U1YA 3PS2A
chains in the Genus database with same CATH superfamily
1ELOA 4LF8E 1RR9A 2PO2B 2V8PA 4DV6I 2UUCI 4DR6I 4QNKA 3P3EA 4PRVA 5K36F 2WP8B 5C0XA 4NXME 2NN6C 4JI7I 2UXDI 2VQEI 1PKPA 2UXBI 1Z0BA 2VF3A 2O3ZA 2DEJA 1FWKA 5C0XE 1HNZI 3PRYA 1UDSA 1UEKA 1ZXNA 2IOPA 3PS3A 4B3RE 2Z5CB 2PO2A 4LFBE 4FWGA 2JEAA 1Z0CA 5JEAC 3OTOI 2VQFE 4OO1C 2O1VA 4JI4E 5C0XD 5LMNI 4IFDB 3H4LA 3L7ZB 5DNXA 2NPFA 4LCFA 2F1DA 2HK2A 2V2QA 4YY3E 1MX0A 3B78A 2ZBKB 4DR4E 4DU7A 5C0XF 4IZJB 1N36I 4K0KI 3GMEA 3D4JA 1XNRE 3JAMQ 4FW9A 1N0VC 1ZXMA 4P7AA 4Z7CA 4IFDA 2V34A 4OZEA 4LFCI 1P42A 4FN5A 4LF7I 3L7ZA 2LJPA 1XNQE 4GKKE 3F0NA 3K85A 4IFDE 3CDIA 4URLA 4IZJA 4DV2E 4NBQA 3P76A 2C38B 1HNWE 4DV7I 4DV4E 2WNRB 5EL9A 1VISA 4MU0A 4JV5E 3PS2A 2Z5BB 4FWDA 1YHCA 1S16A 4IFDD 4MU1A 4LF6I 1ZM4A 4LF4I 4JI2I 1PVGA 2DEIA 1RHYA 1N33I 3J80C 2BV3A 1Y60A 3QT5A 2AJ4A 3P06A 2A2CA 3T1YI 4N3OA 2BA0D 2R3VA 2WW4A 4I3HA 4JI0I 1IBKE 1NHIA 4IFDF 1HNXI 1KTVA 2O1WA 2IOQA 2HFSA 2WNRA 4DR1E 4DV1I 4DPUA 4DV3E 4LF9E 5L3JA 3U1KA 3J7AG 2Z5BA 1Z0VA 3V5RA 5IT9Q 2GS8A 4DV0E 1B62A 2BA1D 2UUAI 1XMOE 3WU5A 4UT4A 2PO1B 5K36C 4DR3I 1Z59A 4AIDA 5LL6R 2UXCE 4U3DA 3QT6A 1I94E 4DR2E 4JI1I 5LMUI 1H73A 3ZZUA 5IWAE 4LF8I 3M7ND 2O1TA 3B8HA 4KQVA 4B3SE 1XMQI 3ZKBA 5ELWA 1NHJA 2PNZB 2UU9E 2NN6B 1RREA 4X64E 1B63A 1Y4SA 4PRXA 1MG7A 2PO1A 1NZ0A 4LFAI 5FLXQ 2PNMA 4B3RI 4DUZE 4MQYA 4JI3E 4LFBI 5A2QC 1BKNA 1PIEA 1QZRA 2PNZA 2VQFI 5BR8E 1MU5A 2NN6A 4JYAE 1J5EI 5C0XC 4JI4I 4OX9E 4OO1B 1HR0E 4FWHA 4DR5I 4RPFA 2WP8A 4QNJA 2GO4A 4LPFA 4DR4I 1EA6A 4NXNI 2BM0A 1KIJA 4JI8I 1FJGE 4KHPE 3T1HI 4JI6E 3M85D 1FI4A 2JE6B 2UUCE 4DR6E 3K17A 1HK7A 1USVA 2CZ9A 4MYUA 4JI7E 2CG9A 4MYTA 2VQEE 2Z5CA 2UXDE 1USUA 4GKKI 2UXBE 4LF5I 3ZM7A 2JT2A 1XXEA 1HNZE 3DD6A 3Q6NA 1IBMI 4DV2I 2IESA 1R6LA 1K47A 1FKAE 3QT7A 1HNWI 1D6TA 1NHHA 1R6MA 4X62E 4ED4A 4HXZA 3PS1A 3ZKDA 2CGEA 4MU3A 2O1UA 4IFDC 4JI5E 2AE8A 4X65E 2V2VA 5LMNE 2HHHE 4Z7YA 3P3CA 3K1JA 4FW5A 3HKMA 1OYRA 2BM1A 3HULA 1H72C 4R1FA 3NZKA 1EI1A 1IBKI 2Q2EB 4AQYE 4LOMA 1H7SA 3PYDA 4DV3I 2J65A 3ZZTA 3JAMC 4DV0I 1XHKA 4LF7E 2C38A 2BA0G 4IZJD 2F4VI 3J7AM 4DV5E 2UUBI 1Z5AA 4X66E 2BR2B 4DR7E 2HKEA 1I94I 1H7UA 5IWAI 2BA1G 4GQUA 4B3SI 4DV7E 4U3BA 1N0UA 1OYPA 4YHHE 3J81C 1A6FA 4XTJA 1KVKA 2UU9I 3QT8A 4X64I 5DRPA 2E5LI 4ISAA 4WUDA 3WU3A 4LF4E 4JI2E 3M7NG 3V2UC 2BR2A 4NXMI 1OJ4A 1UDNA 5A2QQ 4DUZI 3T1YE 2PO0B 2HFUA 2ZM6E 1Z5CA 4DV1E 2X36A 4LCHA 1OYSA 4DUYE 4B3ME 4USKA 4B3TE 4DPXA 4OX9I 1UDOA 2GQ0A 1Z0GA 5IT9C 4JG4A 1IBLE 3PYFA 2OI2A 2E1RA 4FW7A 3WU6A 4GKJE 5FWKA 4FW3A 5JEAB 4KHPI 2PO0A 5GMEA 1FJGI 4AIMA 3B4TA 1N32E 3CWVA 4HYMA 5LMUE 2NN6E 1XMQE 1KKHA 4OKGA 4YY3I 2JEAB 2HK3A 1N34E 1UDQA 1DARA 4P52A 4UTGA 1WUUA 1XNRI 5JEAA 3M85G 1E3HA 3ZZ0A 4DV6E 4LFAE 5GMDA 4OO1A 4BA2B 2CVEA 1Z0TA 5FLXC 2NN6D 1XNQI 4HACB 4USMA 5JEAE 1FNMA 4LCGA 4X62I 1H74A 4OO1E 1J5EE 3WU4A 2PNLA 2NN6F 4FW4A 4JI5I 4X65I 3Q6MA 4M1KA 4DR5E 1Y5YA 3GCMA 2JE6A 2HHHI 5DNLA 4DV4I 3PYEA 2JEBB 4BA2A 4IZKB 3OTOE 4DPWA 4JV5I 5JEAD 1S4EA 4HACA 4JI8E 4NXNE 5DROA 4AQYI 3T1HE 4OO1D 4DXLA 3J80Q 1Y6ZA 3KRNA 1Z0WA 5JEAF 2R42A 4OO1F 1N36E 2ZITA 4LF5E 2JEBA 4DR1I 4K0KE 4DV5I 1ZM3A 2Z5EA 4IZKA 4LF9I 4X66I 1IBME 2J7KA 4DR7I 4ZVIA 4LFCE 2X7IA 2HKJA 2GO3A 4MDTA 3LTOA 1Z5BA 1ZM2A 3J81Q 1XMOI 2V2ZA 2XEXA 3GLLA 4DPTA 4YHHI 3H1CA 5K36B 1ZM9A 2A2DA 1E3PA 4AM3A 3U1YA 2UXCI 4DR2I 3CDJA 2EFGA 4FW6A 4DU8A 1Y4UA 2C39B 4WUBA 1Z0EA 4BA1B 3Q1QA 2VESA 3M6AA 2ZM6I 5EKWA 5K36A 4LF6E 4DUYI 4B3MI 4B3TI 1N33E 4DPYA 4J3DA 5DRQA 3HJCA 4JI3I 1IBLI 5K36E 4JI0E 4HY1A 1HNXE 3B82A 3LPSA 1FWLA 1U2RA 4IS9A 2F4VE 2C37B 4GKJI 2UUBE 4EMDA 5BR8I 2C39A 4JYAI 3P3GA 1YH8A 3UHMA 3PYGA 4BA1A 1N32I 5C0XB 1HR0I 2UUAE 5DRRA 4PU9A 4WUCA 2IERA 3LNUA 4DR3E 1N34I 5K36D 3GONA 4JI6I 2E5LE 2C37A 4MU4A 1VI7A 4JI1E
chains in the Genus database with same CATH topology
3NZKA 4OZEA 1YHCA 4IS9A 1P42A 4OKGA 3P3EA 2GO4A 2IESA 4LCHA 4FW4A 4U3BA 3P3GA 1YH8A 3UHMA 4FW6A 2J65A 4MQYA 2O3ZA 5DRPA 4LCFA 4U3DA 2VESA 3PS1A 4FW7A 4ISAA 5DRRA 2GO3A 4MDTA 5DROA 2IERA 3P76A 4FW3A 3PS3A 3P3CA 4J3DA 2JT2A 4LCGA 4FW5A 1XXEA 5DRQA 3U1YA 3PS2A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3NZK A;  4OZE A;  1YHC A;  4IS9 A;  1P42 A;  4OKG A;  3P3E A;  2GO4 A;  2IES A;  4LCH A;  4FW4 A;  4U3B A;  3P3G A;  1YH8 A;  3UHM A;  4FW6 A;  2J65 A;  4MQY A;  2O3Z A;  5DRP A;  4LCF A;  4U3D A;  2VES A;  3PS1 A;  4FW7 A;  4ISA A;  5DRR A;  2GO3 A;  4MDT A;  5DRO A;  2IER A;  3P76 A;  4FW3 A;  3PS3 A;  3P3C A;  4J3D A;  2JT2 A;  4LCG A;  4FW5 A;  1XXE A;  5DRQ A;  3U1Y A;  3PS2 A; 
#chains in the Genus database with same CATH topology
 1ELO A;  4LF8 E;  1RR9 A;  2PO2 B;  2V8P A;  4DV6 I;  2UUC I;  4DR6 I;  4QNK A;  3P3E A;  4PRV A;  5K36 F;  2WP8 B;  5C0X A;  4NXM E;  2NN6 C;  4JI7 I;  2UXD I;  2VQE I;  1PKP A;  2UXB I;  1Z0B A;  2VF3 A;  2O3Z A;  2DEJ A;  1FWK A;  5C0X E;  1HNZ I;  3PRY A;  1UDS A;  1UEK A;  1ZXN A;  2IOP A;  3PS3 A;  4B3R E;  2Z5C B;  2PO2 A;  4LFB E;  4FWG A;  2JEA A;  1Z0C A;  5JEA C;  3OTO I;  2VQF E;  4OO1 C;  2O1V A;  4JI4 E;  5C0X D;  5LMN I;  4IFD B;  3H4L A;  3L7Z B;  5DNX A;  2NPF A;  4LCF A;  2F1D A;  2HK2 A;  2V2Q A;  4YY3 E;  1MX0 A;  3B78 A;  2ZBK B;  4DR4 E;  4DU7 A;  5C0X F;  4IZJ B;  1N36 I;  4K0K I;  3GME A;  3D4J A;  1XNR E;  3JAM Q;  4FW9 A;  1N0V C;  1ZXM A;  4P7A A;  4Z7C A;  4IFD A;  2V34 A;  4OZE A;  4LFC I;  1P42 A;  4FN5 A;  4LF7 I;  3L7Z A;  2LJP A;  1XNQ E;  4GKK E;  3F0N A;  3K85 A;  4IFD E;  3CDI A;  4URL A;  4IZJ A;  4DV2 E;  4NBQ A;  3P76 A;  2C38 B;  1HNW E;  4DV7 I;  4DV4 E;  2WNR B;  5EL9 A;  1VIS A;  4MU0 A;  4JV5 E;  3PS2 A;  2Z5B B;  4FWD A;  1YHC A;  1S16 A;  4IFD D;  4MU1 A;  4LF6 I;  1ZM4 A;  4LF4 I;  4JI2 I;  1PVG A;  2DEI A;  1RHY A;  1N33 I;  3J80 C;  2BV3 A;  1Y60 A;  3QT5 A;  2AJ4 A;  3P06 A;  2A2C A;  3T1Y I;  4N3O A;  2BA0 D;  2R3V A;  2WW4 A;  4I3H A;  4JI0 I;  1IBK E;  1NHI A;  4IFD F;  1HNX I;  1KTV A;  2O1W A;  2IOQ A;  2HFS A;  2WNR A;  4DR1 E;  4DV1 I;  4DPU A;  4DV3 E;  4LF9 E;  5L3J A;  3U1K A;  3J7A G;  2Z5B A;  1Z0V A;  3V5R A;  5IT9 Q;  2GS8 A;  4DV0 E;  1B62 A;  2BA1 D;  2UUA I;  1XMO E;  3WU5 A;  4UT4 A;  2PO1 B;  5K36 C;  4DR3 I;  1Z59 A;  4AID A;  5LL6 R;  2UXC E;  4U3D A;  3QT6 A;  1I94 E;  4DR2 E;  4JI1 I;  5LMU I;  1H73 A;  3ZZU A;  5IWA E;  4LF8 I;  3M7N D;  2O1T A;  3B8H A;  4KQV A;  4B3S E;  1XMQ I;  3ZKB A;  5ELW A;  1NHJ A;  2PNZ B;  2UU9 E;  2NN6 B;  1RRE A;  4X64 E;  1B63 A;  1Y4S A;  4PRX A;  1MG7 A;  2PO1 A;  1NZ0 A;  4LFA I;  5FLX Q;  2PNM A;  4B3R I;  4DUZ E;  4MQY A;  4JI3 E;  4LFB I;  5A2Q C;  1BKN A;  1PIE A;  1QZR A;  2PNZ A;  2VQF I;  5BR8 E;  1MU5 A;  2NN6 A;  4JYA E;  1J5E I;  5C0X C;  4JI4 I;  4OX9 E;  4OO1 B;  1HR0 E;  4FWH A;  4DR5 I;  4RPF A;  2WP8 A;  4QNJ A;  2GO4 A;  4LPF A;  4DR4 I;  1EA6 A;  4NXN I;  2BM0 A;  1KIJ A;  4JI8 I;  1FJG E;  4KHP E;  3T1H I;  4JI6 E;  3M85 D;  1FI4 A;  2JE6 B;  2UUC E;  4DR6 E;  3K17 A;  1HK7 A;  1USV A;  2CZ9 A;  4MYU A;  4JI7 E;  2CG9 A;  4MYT A;  2VQE E;  2Z5C A;  2UXD E;  1USU A;  4GKK I;  2UXB E;  4LF5 I;  3ZM7 A;  2JT2 A;  1XXE A;  1HNZ E;  3DD6 A;  3Q6N A;  1IBM I;  4DV2 I;  2IES A;  1R6L A;  1K47 A;  1FKA E;  3QT7 A;  1HNW I;  1D6T A;  1NHH A;  1R6M A;  4X62 E;  4ED4 A;  4HXZ A;  3PS1 A;  3ZKD A;  2CGE A;  4MU3 A;  2O1U A;  4IFD C;  4JI5 E;  2AE8 A;  4X65 E;  2V2V A;  5LMN E;  2HHH E;  4Z7Y A;  3P3C A;  3K1J A;  4FW5 A;  3HKM A;  1OYR A;  2BM1 A;  3HUL A;  1H72 C;  4R1F A;  3NZK A;  1EI1 A;  1IBK I;  2Q2E B;  4AQY E;  4LOM A;  1H7S A;  3PYD A;  4DV3 I;  2J65 A;  3ZZT A;  3JAM C;  4DV0 I;  1XHK A;  4LF7 E;  2C38 A;  2BA0 G;  4IZJ D;  2F4V I;  3J7A M;  4DV5 E;  2UUB I;  1Z5A A;  4X66 E;  2BR2 B;  4DR7 E;  2HKE A;  1I94 I;  1H7U A;  5IWA I;  2BA1 G;  4GQU A;  4B3S I;  4DV7 E;  4U3B A;  1N0U A;  1OYP A;  4YHH E;  3J81 C;  1A6F A;  4XTJ A;  1KVK A;  2UU9 I;  3QT8 A;  4X64 I;  5DRP A;  2E5L I;  4ISA A;  4WUD A;  3WU3 A;  4LF4 E;  4JI2 E;  3M7N G;  3V2U C;  2BR2 A;  4NXM I;  1OJ4 A;  1UDN A;  5A2Q Q;  4DUZ I;  3T1Y E;  2PO0 B;  2HFU A;  2ZM6 E;  1Z5C A;  4DV1 E;  2X36 A;  4LCH A;  1OYS A;  4DUY E;  4B3M E;  4USK A;  4B3T E;  4DPX A;  4OX9 I;  1UDO A;  2GQ0 A;  1Z0G A;  5IT9 C;  4JG4 A;  1IBL E;  3PYF A;  2OI2 A;  2E1R A;  4FW7 A;  3WU6 A;  4GKJ E;  5FWK A;  4FW3 A;  5JEA B;  4KHP I;  2PO0 A;  5GME A;  1FJG I;  4AIM A;  3B4T A;  1N32 E;  3CWV A;  4HYM A;  5LMU E;  2NN6 E;  1XMQ E;  1KKH A;  4OKG A;  4YY3 I;  2JEA B;  2HK3 A;  1N34 E;  1UDQ A;  1DAR A;  4P52 A;  4UTG A;  1WUU A;  1XNR I;  5JEA A;  3M85 G;  1E3H A;  3ZZ0 A;  4DV6 E;  4LFA E;  5GMD A;  4OO1 A;  4BA2 B;  2CVE A;  1Z0T A;  5FLX C;  2NN6 D;  1XNQ I;  4HAC B;  4USM A;  5JEA E;  1FNM A;  4LCG A;  4X62 I;  1H74 A;  4OO1 E;  1J5E E;  3WU4 A;  2PNL A;  2NN6 F;  4FW4 A;  4JI5 I;  4X65 I;  3Q6M A;  4M1K A;  4DR5 E;  1Y5Y A;  3GCM A;  2JE6 A;  2HHH I;  5DNL A;  4DV4 I;  3PYE A;  2JEB B;  4BA2 A;  4IZK B;  3OTO E;  4DPW A;  4JV5 I;  5JEA D;  1S4E A;  4HAC A;  4JI8 E;  4NXN E;  5DRO A;  4AQY I;  3T1H E;  4OO1 D;  4DXL A;  3J80 Q;  1Y6Z A;  3KRN A;  1Z0W A;  5JEA F;  2R42 A;  4OO1 F;  1N36 E;  2ZIT A;  4LF5 E;  2JEB A;  4DR1 I;  4K0K E;  4DV5 I;  1ZM3 A;  2Z5E A;  4IZK A;  4LF9 I;  4X66 I;  1IBM E;  2J7K A;  4DR7 I;  4ZVI A;  4LFC E;  2X7I A;  2HKJ A;  2GO3 A;  4MDT A;  3LTO A;  1Z5B A;  1ZM2 A;  3J81 Q;  1XMO I;  2V2Z A;  2XEX A;  3GLL A;  4DPT A;  4YHH I;  3H1C A;  5K36 B;  1ZM9 A;  2A2D A;  1E3P A;  4AM3 A;  3U1Y A;  2UXC I;  4DR2 I;  3CDJ A;  2EFG A;  4FW6 A;  4DU8 A;  1Y4U A;  2C39 B;  4WUB A;  1Z0E A;  4BA1 B;  3Q1Q A;  2VES A;  3M6A A;  2ZM6 I;  5EKW A;  5K36 A;  4LF6 E;  4DUY I;  4B3M I;  4B3T I;  1N33 E;  4DPY A;  4J3D A;  5DRQ A;  3HJC A;  4JI3 I;  1IBL I;  5K36 E;  4JI0 E;  4HY1 A;  1HNX E;  3B82 A;  3LPS A;  1FWL A;  1U2R A;  4IS9 A;  2F4V E;  2C37 B;  4GKJ I;  2UUB E;  4EMD A;  5BR8 I;  2C39 A;  4JYA I;  3P3G A;  1YH8 A;  3UHM A;  3PYG A;  4BA1 A;  1N32 I;  5C0X B;  1HR0 I;  2UUA E;  5DRR A;  4PU9 A;  4WUC A;  2IER A;  3LNU A;  4DR3 E;  1N34 I;  5K36 D;  3GON A;  4JI6 I;  2E5L E;  2C37 A;  4MU4 A;  1VI7 A;  4JI1 E; 
#chains in the Genus database with same CATH homology
 3NZK A;  4OZE A;  1YHC A;  4IS9 A;  1P42 A;  4OKG A;  3P3E A;  2GO4 A;  2IES A;  4LCH A;  4FW4 A;  4U3B A;  3P3G A;  1YH8 A;  3UHM A;  4FW6 A;  2J65 A;  4MQY A;  2O3Z A;  5DRP A;  4LCF A;  4U3D A;  2VES A;  3PS1 A;  4FW7 A;  4ISA A;  5DRR A;  2GO3 A;  4MDT A;  5DRO A;  2IER A;  3P76 A;  4FW3 A;  3PS3 A;  3P3C A;  4J3D A;  2JT2 A;  4LCG A;  4FW5 A;  1XXE A;  5DRQ A;  3U1Y A;  3PS2 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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