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


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