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
Loading diagram...

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


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