4KDLA

Crystal structure of p97/vcp n in complex with otu1 ubxl
Total Genus 53
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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
53
sequence length
174
structure length
174
Chain Sequence
PNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLLKGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHCEGEPIKREDEEE
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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 Structural Basis for Ovarian Tumor Domain-containing Protein 1 (OTU1) Binding to p97/Valosin-containing Protein (VCP).
pubmed doi rcsb
source organism Homo sapiens
molecule tags Signaling protein/hydrolase
molecule keywords Transitional endoplasmic reticulum ATPase
total genus 53
structure length 174
sequence length 174
ec nomenclature ec 3.6.4.6: Vesicle-fusing ATPase.
pdb deposition date 2013-04-25

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02359 CDC48_N Cell division protein 48 (CDC48), N-terminal domain
A PF02933 CDC48_2 Cell division protein 48 (CDC48), domain 2
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.40.20 Mainly Beta Beta Barrel Barwin-like endoglucanases Barwin-like endoglucanases 4kdlA01
3.10.330.10 Alpha Beta Roll Vcp-like ATPase; Chain A, domain 2 Vcp-like ATPase; Chain A, domain 2 4kdlA02
1PYUB 1PT1A 2IV2X 2JV2A 1TWFA 2NYAA 3HU1A 2YU9A 1R7RA 3PLXB 4AAYA 2JA7A 1FDOA 3GTKA 1WCMA 1YLEA 2JIOA 2VPZA 2JA6A 3CQZA 3CF2A 2PJHB 4KODA 2R92A 1R27A 3GTLA 2R7ZA 1PYQA 3QQ7A 2NVXA 3IR7A 2Y0SA 1R9TA 4QIWA 1TWCA 4RV0A 1AA6A 3HU2A 3GTMA 3GTPA 2B63A 3QQ8A 1CR5A 2R93A 4CS0A 2JIQA 3TIWA 4KDLA 3GTQA 1CZ4A 5DYIA 1G8KA 2WB1A 1E18A 5FTJA 1PPYA 1TWGA 2JA5A 5T5MD 2E7ZA 3H0GA 1UHDA 2V45A 1ZC1A 1OGYA 1SFOA 2EEOB 1G8JA 1Q16A 3O5AA 4D7ZB 4DMRA 4C2MA 1EU1A 2JIPA 1DMRA 1SIWA 1WLFA 2VPYA 3OUGA 3IR5A 1QCSA 1Y1VA 3QC8A 4CRYG 2VPWA 4KLNA 2V3VA 1FDIA 1E60A 1H5NA 1PT0A 1QDNA 1S3SA 1VC3B 2YUJA 3HU3A 4AYBA 2VUMA 4KDIA 4GA6A 5C1BA 1KQFA 2C45A 2DMRA 4AONB 1H0HA 1I50A 4GA5A 3GTJA 2NAPA 3QWZA 2E2IA 5B6CA 2E2HA 1CZ5A 1DMSA 2JIRA 1E61A 3TM7B 3GTOA 1E32A 5FTNA 3DMRA 5FTLA 2VPXA 1PQHA 2PMZA 1PQFA 1PQEA 1Y4ZA 2KI8A 5FTKA 1UHEA 1TMOA 2NVYA 1KQGA 3GTGA 1TWAA 2WAQA 5DYGA 1IW7D 1I3QA 3FKIA 3IR6A 5C18A 5FTMA 1K83A 4AZDA 3ML1A 1Y5IA 4AOKB 2JIMA 1E5VA 5GLFA 1TWHA 4KO8A 5EPPA 4CRZA 1Y1WA 1AW8B 3HKZA 5T5ID
chains in the Genus database with same CATH superfamily
4JCWA 1PYUB 4FERA 2Q19X 1PT1A 2PICA 3CZBA 2IV2X 1TWFA 3X2KA 2JV2A 2NYAA 2LW6A 3HU1A 2YU9A 1R7RA 1WC2A 3PLXB 1BW3A 4AAYA 2Q1DX 2JA7A 3ZJTA 1FDOA 3FPTA 1YNND 3GTKA 1WCMA 2QQRA 1YLEA 2JIOA 2VPZA 2O5JD 2JA6A 3CQZA 2CW0D 4FFTA 3CF2A 2PJHB 4KODA 2R92A 1R27A 2Q1AX 2A6ED 3SULA 5GLXA 3GTLA 2BH0A 2R7ZA 1PYQA 3QQ7A 2NVXA 3IR7A 2Y0SA 1R9TA 2A6HD 4QIWA 1TWCA 4RV0A 3SUMA 3FPRA 2B25A 1AA6A 3HU2A 3GTMA 3GTPA 2MM2A 3X2HA 1OA9A 3X2NA 2B63A 3QQ8A 1CR5A 2R93A 5D6YA 2XDPA 4CS0A 2JIQA 3TIWA 4KDLA 3GTQA 1CZ4A 4JP7A 5DYIA 1G8KA 2WB1A 3ZJVA 1E18A 5FTJA 1PPYA 1TWGA 2JA5A 5T5MD 2E7ZA 1HD5A 3H0GA 1UHDA 2V45A 3X2JA 1O54A 2GF7A 2KY9A 1ZC1A 2QQSA 5D6XA 1OGYA 1SFOA 3X2LA 4FG2A 4CQNA 2EEOB 1G8JA 1Q16A 3O5AA 3X2IA 3LGAA 4D7ZB 4DMRA 4C2MA 2A68D 4UC4A 1EU1A 3BQBA 4AQ7A 2JIPA 3ZGZA 1DMRA 1SIWA 3X2GA 2YVLA 2PWYA 1WLFA 2VPYA 4FIBA 3OUGA 3IR5A 1QCSA 1Y1VA 3QC8A 4CRYG 2VPWA 3M3GA 2PI8A 3FPUA 3ENGA 4KLNA 2V3VA 1OA7A 1FDIA 1E60A 1H5NA 2GAEA 1PT0A 2HCZX 1QDNA 1S3SA 1VC3B 2YUJA 2PJJA 3HU3A 4AYBA 2VUMA 1L8FA 3MB5A 4KDIA 5GM9A 5D6WA 4GA6A 4L48A 2AE0X 2ENGA 5C1BA 1KQFA 4JJOA 2G6GA 2C45A 2DMRA 3X2PA 1H0HA 4AONB 1I50A 4GA5A 2GFAA 3GTJA 2Q18X 2NAPA 3QWZA 4FG4A 2E2IA 5B6CA 1I9GA 2E2HA 1CZ5A 1DMSA 4ARIA 4JS7A 4AS1A 5CCXA 2Q1CX 1YNJD 2JIRA 1E61A 3TM7B 3GTOA 1E32A 5FTNA 3DMRA 3ZJUA 3LHDA 5FTLA 3X2MA 2G5DA 5EQJB 1BW4A 2VPXA 1PQHA 1ZYRD 2PMZA 4ARCA 3D30A 1PQFA 1PQEA 3SUJA 5H4UA 1Y4ZA 2BE5D 2KI8A 5ERGB 5FTKA 3X2OA 4AVRA 1UHEA 1TMOA 2NVYA 1KQGA 2PNWA 1TWAA 3GTGA 2MM0A 4JP6A 5GLYA 2WAQA 5DYGA 1IW7D 1I3QA 3FKIA 3IR6A 4NOHA 2KQAA 5C18A 2A69D 5CD1A 5FTMA 4ZM7A 1K83A 4AZDA 3ML1A 1Y5IA 4AOKB 2JIMA 1E5VA 5GLFA 1TWHA 4KO8A 5EPPA 1N10A 1SMYD 4CRZA 3SUKA 1Y1WA 5CCBA 4ENGA 1AW8B 3HKZA 5T5ID
chains in the Genus database with same CATH topology
1PYUB 2Q19X 1PT1A 2PICA 3CZBA 2IV2X 1TWFA 2JV2A 2NYAA 2LW6A 3HU1A 2YU9A 1R7RA 3PLXB 4AAYA 2Q1DX 2JA7A 3ZJTA 1FDOA 3FPTA 1YNND 3GTKA 1WCMA 2QQRA 1YLEA 2JIOA 2VPZA 2O5JD 2JA6A 3CQZA 2CW0D 3CF2A 2PJHB 4KODA 2R92A 1R27A 2Q1AX 2A6ED 3GTLA 2R7ZA 1PYQA 3QQ7A 2NVXA 3IR7A 2Y0SA 1R9TA 2A6HD 4QIWA 1TWCA 4RV0A 3FPRA 2B25A 1AA6A 3HU2A 3GTMA 3GTPA 2MM2A 2B63A 5D6YA 3QQ8A 1CR5A 2R93A 2XDPA 4CS0A 2JIQA 3TIWA 4KDLA 3GTQA 1CZ4A 5DYIA 1G8KA 2WB1A 3ZJVA 1E18A 5FTJA 1PPYA 1TWGA 2JA5A 5T5MD 2E7ZA 3H0GA 1UHDA 2V45A 1O54A 2KY9A 2GF7A 1ZC1A 2QQSA 5D6XA 1OGYA 1SFOA 4CQNA 2EEOB 1G8JA 1Q16A 3O5AA 3LGAA 4D7ZB 4DMRA 4C2MA 2A68D 4UC4A 1EU1A 3BQBA 4AQ7A 2JIPA 3ZGZA 1DMRA 1SIWA 2YVLA 2PWYA 1WLFA 2VPYA 4FIBA 3OUGA 3IR5A 1QCSA 1Y1VA 3QC8A 4CRYG 2VPWA 2PI8A 3FPUA 4KLNA 2V3VA 1FDIA 1E60A 1H5NA 2GAEA 1PT0A 1QDNA 1S3SA 1VC3B 2YUJA 2PJJA 3HU3A 4AYBA 2VUMA 3MB5A 4KDIA 5D6WA 4GA6A 2AE0X 5C1BA 1KQFA 2G6GA 2C45A 2DMRA 4AONB 1H0HA 1I50A 4GA5A 2GFAA 3GTJA 2Q18X 2NAPA 3QWZA 2E2IA 5B6CA 1I9GA 2E2HA 1CZ5A 1DMSA 4ARIA 4AS1A 5CCXA 2Q1CX 1YNJD 2JIRA 1E61A 3TM7B 3GTOA 1E32A 5FTNA 3DMRA 3ZJUA 3LHDA 5FTLA 2G5DA 5EQJB 2VPXA 1PQHA 1ZYRD 2PMZA 4ARCA 1PQFA 1PQEA 5ERGB 1Y4ZA 2BE5D 2KI8A 5FTKA 1UHEA 1TMOA 2NVYA 1KQGA 2PNWA 1TWAA 3GTGA 2MM0A 2WAQA 5DYGA 1IW7D 1I3QA 3FKIA 3IR6A 4NOHA 5C18A 2A69D 5CD1A 5FTMA 1K83A 4AZDA 3ML1A 1Y5IA 4AOKB 2JIMA 1E5VA 5GLFA 1TWHA 4KO8A 5EPPA 1SMYD 4CRZA 1Y1WA 5CCBA 1AW8B 3HKZA 5T5ID
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1PYU B;  1PT1 A;  2IV2 X;  2JV2 A;  1TWF A;  2NYA A;  3HU1 A;  2YU9 A;  1R7R A;  3PLX B;  4AAY A;  2JA7 A;  1FDO A;  3GTK A;  1WCM A;  1YLE A;  2JIO A;  2VPZ A;  2JA6 A;  3CQZ A;  3CF2 A;  2PJH B;  4KOD A;  2R92 A;  1R27 A;  3GTL A;  2R7Z A;  1PYQ A;  3QQ7 A;  2NVX A;  3IR7 A;  2Y0S A;  1R9T A;  4QIW A;  1TWC A;  4RV0 A;  1AA6 A;  3HU2 A;  3GTM A;  3GTP A;  2B63 A;  3QQ8 A;  1CR5 A;  2R93 A;  4CS0 A;  2JIQ A;  3TIW A;  4KDL A;  3GTQ A;  1CZ4 A;  5DYI A;  1G8K A;  2WB1 A;  1E18 A;  5FTJ A;  1PPY A;  1TWG A;  2JA5 A;  5T5M D;  2E7Z A;  3H0G A;  1UHD A;  2V45 A;  1ZC1 A;  1OGY A;  1SFO A;  2EEO B;  1G8J A;  1Q16 A;  3O5A A;  4D7Z B;  4DMR A;  4C2M A;  1EU1 A;  2JIP A;  1DMR A;  1SIW A;  1WLF A;  2VPY A;  3OUG A;  3IR5 A;  1QCS A;  1Y1V A;  3QC8 A;  4CRY G;  2VPW A;  4KLN A;  2V3V A;  1FDI A;  1E60 A;  1H5N A;  1PT0 A;  1QDN A;  1S3S A;  1VC3 B;  2YUJ A;  3HU3 A;  4AYB A;  2VUM A;  4KDI A;  4GA6 A;  5C1B A;  1KQF A;  2C45 A;  2DMR A;  4AON B;  1H0H A;  1I50 A;  4GA5 A;  3GTJ A;  2NAP A;  3QWZ A;  2E2I A;  5B6C A;  2E2H A;  1CZ5 A;  1DMS A;  2JIR A;  1E61 A;  3TM7 B;  3GTO A;  1E32 A;  5FTN A;  3DMR A;  5FTL A;  2VPX A;  1PQH A;  2PMZ A;  1PQF A;  1PQE A;  1Y4Z A;  2KI8 A;  5FTK A;  1UHE A;  1TMO A;  2NVY A;  1KQG A;  3GTG A;  1TWA A;  2WAQ A;  5DYG A;  1IW7 D;  1I3Q A;  3FKI A;  3IR6 A;  5C18 A;  5FTM A;  1K83 A;  4AZD A;  3ML1 A;  1Y5I A;  4AOK B;  2JIM A;  1E5V A;  5GLF A;  1TWH A;  4KO8 A;  5EPP A;  4CRZ A;  1Y1W A;  1AW8 B;  3HKZ A;  5T5I D; 
#chains in the Genus database with same CATH topology
 4JCW A;  1PYU B;  4FER A;  2Q19 X;  1PT1 A;  2PIC A;  3CZB A;  2IV2 X;  1TWF A;  3X2K A;  2JV2 A;  2NYA A;  2LW6 A;  3HU1 A;  2YU9 A;  1R7R A;  1WC2 A;  3PLX B;  1BW3 A;  4AAY A;  2Q1D X;  2JA7 A;  3ZJT A;  1FDO A;  3FPT A;  1YNN D;  3GTK A;  1WCM A;  2QQR A;  1YLE A;  2JIO A;  2VPZ A;  2O5J D;  2JA6 A;  3CQZ A;  2CW0 D;  4FFT A;  3CF2 A;  2PJH B;  4KOD A;  2R92 A;  1R27 A;  2Q1A X;  2A6E D;  3SUL A;  5GLX A;  3GTL A;  2BH0 A;  2R7Z A;  1PYQ A;  3QQ7 A;  2NVX A;  3IR7 A;  2Y0S A;  1R9T A;  2A6H D;  4QIW A;  1TWC A;  4RV0 A;  3SUM A;  3FPR A;  2B25 A;  1AA6 A;  3HU2 A;  3GTM A;  3GTP A;  2MM2 A;  3X2H A;  1OA9 A;  3X2N A;  2B63 A;  3QQ8 A;  1CR5 A;  2R93 A;  5D6Y A;  2XDP A;  4CS0 A;  2JIQ A;  3TIW A;  4KDL A;  3GTQ A;  1CZ4 A;  4JP7 A;  5DYI A;  1G8K A;  2WB1 A;  3ZJV A;  1E18 A;  5FTJ A;  1PPY A;  1TWG A;  2JA5 A;  5T5M D;  2E7Z A;  1HD5 A;  3H0G A;  1UHD A;  2V45 A;  3X2J A;  1O54 A;  2GF7 A;  2KY9 A;  1ZC1 A;  2QQS A;  5D6X A;  1OGY A;  1SFO A;  3X2L A;  4FG2 A;  4CQN A;  2EEO B;  1G8J A;  1Q16 A;  3O5A A;  3X2I A;  3LGA A;  4D7Z B;  4DMR A;  4C2M A;  2A68 D;  4UC4 A;  1EU1 A;  3BQB A;  4AQ7 A;  2JIP A;  3ZGZ A;  1DMR A;  1SIW A;  3X2G A;  2YVL A;  2PWY A;  1WLF A;  2VPY A;  4FIB A;  3OUG A;  3IR5 A;  1QCS A;  1Y1V A;  3QC8 A;  4CRY G;  2VPW A;  3M3G A;  2PI8 A;  3FPU A;  3ENG A;  4KLN A;  2V3V A;  1OA7 A;  1FDI A;  1E60 A;  1H5N A;  2GAE A;  1PT0 A;  2HCZ X;  1QDN A;  1S3S A;  1VC3 B;  2YUJ A;  2PJJ A;  3HU3 A;  4AYB A;  2VUM A;  1L8F A;  3MB5 A;  4KDI A;  5GM9 A;  5D6W A;  4GA6 A;  4L48 A;  2AE0 X;  2ENG A;  5C1B A;  1KQF A;  4JJO A;  2G6G A;  2C45 A;  2DMR A;  3X2P A;  1H0H A;  4AON B;  1I50 A;  4GA5 A;  2GFA A;  3GTJ A;  2Q18 X;  2NAP A;  3QWZ A;  4FG4 A;  2E2I A;  5B6C A;  1I9G A;  2E2H A;  1CZ5 A;  1DMS A;  4ARI A;  4JS7 A;  4AS1 A;  5CCX A;  2Q1C X;  1YNJ D;  2JIR A;  1E61 A;  3TM7 B;  3GTO A;  1E32 A;  5FTN A;  3DMR A;  3ZJU A;  3LHD A;  5FTL A;  3X2M A;  2G5D A;  5EQJ B;  1BW4 A;  2VPX A;  1PQH A;  1ZYR D;  2PMZ A;  4ARC A;  3D30 A;  1PQF A;  1PQE A;  3SUJ A;  5H4U A;  1Y4Z A;  2BE5 D;  2KI8 A;  5ERG B;  5FTK A;  3X2O A;  4AVR A;  1UHE A;  1TMO A;  2NVY A;  1KQG A;  2PNW A;  1TWA A;  3GTG A;  2MM0 A;  4JP6 A;  5GLY A;  2WAQ A;  5DYG A;  1IW7 D;  1I3Q A;  3FKI A;  3IR6 A;  4NOH A;  2KQA A;  5C18 A;  2A69 D;  5CD1 A;  5FTM A;  4ZM7 A;  1K83 A;  4AZD A;  3ML1 A;  1Y5I A;  4AOK B;  2JIM A;  1E5V A;  5GLF A;  1TWH A;  4KO8 A;  5EPP A;  1N10 A;  1SMY D;  4CRZ A;  3SUK A;  1Y1W A;  5CCB A;  4ENG A;  1AW8 B;  3HKZ A;  5T5I D; 
#chains in the Genus database with same CATH homology
 1PYU B;  2Q19 X;  1PT1 A;  2PIC A;  3CZB A;  2IV2 X;  1TWF A;  2JV2 A;  2NYA A;  2LW6 A;  3HU1 A;  2YU9 A;  1R7R A;  3PLX B;  4AAY A;  2Q1D X;  2JA7 A;  3ZJT A;  1FDO A;  3FPT A;  1YNN D;  3GTK A;  1WCM A;  2QQR A;  1YLE A;  2JIO A;  2VPZ A;  2O5J D;  2JA6 A;  3CQZ A;  2CW0 D;  3CF2 A;  2PJH B;  4KOD A;  2R92 A;  1R27 A;  2Q1A X;  2A6E D;  3GTL A;  2R7Z A;  1PYQ A;  3QQ7 A;  2NVX A;  3IR7 A;  2Y0S A;  1R9T A;  2A6H D;  4QIW A;  1TWC A;  4RV0 A;  3FPR A;  2B25 A;  1AA6 A;  3HU2 A;  3GTM A;  3GTP A;  2MM2 A;  2B63 A;  5D6Y A;  3QQ8 A;  1CR5 A;  2R93 A;  2XDP A;  4CS0 A;  2JIQ A;  3TIW A;  4KDL A;  3GTQ A;  1CZ4 A;  5DYI A;  1G8K A;  2WB1 A;  3ZJV A;  1E18 A;  5FTJ A;  1PPY A;  1TWG A;  2JA5 A;  5T5M D;  2E7Z A;  3H0G A;  1UHD A;  2V45 A;  1O54 A;  2KY9 A;  2GF7 A;  1ZC1 A;  2QQS A;  5D6X A;  1OGY A;  1SFO A;  4CQN A;  2EEO B;  1G8J A;  1Q16 A;  3O5A A;  3LGA A;  4D7Z B;  4DMR A;  4C2M A;  2A68 D;  4UC4 A;  1EU1 A;  3BQB A;  4AQ7 A;  2JIP A;  3ZGZ A;  1DMR A;  1SIW A;  2YVL A;  2PWY A;  1WLF A;  2VPY A;  4FIB A;  3OUG A;  3IR5 A;  1QCS A;  1Y1V A;  3QC8 A;  4CRY G;  2VPW A;  2PI8 A;  3FPU A;  4KLN A;  2V3V A;  1FDI A;  1E60 A;  1H5N A;  2GAE A;  1PT0 A;  1QDN A;  1S3S A;  1VC3 B;  2YUJ A;  2PJJ A;  3HU3 A;  4AYB A;  2VUM A;  3MB5 A;  4KDI A;  5D6W A;  4GA6 A;  2AE0 X;  5C1B A;  1KQF A;  2G6G A;  2C45 A;  2DMR A;  4AON B;  1H0H A;  1I50 A;  4GA5 A;  2GFA A;  3GTJ A;  2Q18 X;  2NAP A;  3QWZ A;  2E2I A;  5B6C A;  1I9G A;  2E2H A;  1CZ5 A;  1DMS A;  4ARI A;  4AS1 A;  5CCX A;  2Q1C X;  1YNJ D;  2JIR A;  1E61 A;  3TM7 B;  3GTO A;  1E32 A;  5FTN A;  3DMR A;  3ZJU A;  3LHD A;  5FTL A;  2G5D A;  5EQJ B;  2VPX A;  1PQH A;  1ZYR D;  2PMZ A;  4ARC A;  1PQF A;  1PQE A;  5ERG B;  1Y4Z A;  2BE5 D;  2KI8 A;  5FTK A;  1UHE A;  1TMO A;  2NVY A;  1KQG A;  2PNW A;  1TWA A;  3GTG A;  2MM0 A;  2WAQ A;  5DYG A;  1IW7 D;  1I3Q A;  3FKI A;  3IR6 A;  4NOH A;  5C18 A;  2A69 D;  5CD1 A;  5FTM A;  1K83 A;  4AZD A;  3ML1 A;  1Y5I A;  4AOK B;  2JIM A;  1E5V A;  5GLF A;  1TWH A;  4KO8 A;  5EPP A;  1SMY D;  4CRZ A;  1Y1W A;  5CCB A;  1AW8 B;  3HKZ A;  5T5I D; 
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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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