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


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