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


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