3KYVA

Denovo x-ray crystal structure determination of h-labeled perdeuterated rubredoxin at 100k
Total Genus 11
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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
11
sequence length
54
structure length
54
Chain Sequence
MAKWVCKICGYIYDEDAGDPDNGISPGTKFEELPDDWVCPICGAPKSEFEKLED
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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molecule tags Electron transport
molecule keywords Rubredoxin
publication title Unambiguous determination of H-atom positions: comparing results from neutron and high-resolution X-ray crystallography.
pubmed doi rcsb
source organism Pyrococcus furiosus
total genus 11
structure length 54
sequence length 54
ec nomenclature
pdb deposition date 2009-12-07

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00301 Rubredoxin Rubredoxin
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.20.28.10 Mainly Beta Single Sheet Rubrerythrin, domain 2 Rubrerythrin, domain 2 3kyvA00
1JYBA 2V3BB 1QCVA 3KYUA 4ME3A 1NNQA 4YWLA 1H7VA 1RWDA 1B13A 2VL6A 1QYBA 3RYGA 1BQ8A 6RXNA 1B2JA 1YUZA 1SMWA 3RZ6A 3RZTA 1IU6A 2DSXA 4TPUA 1R0IA 1S30A 1LKPA 2K2DA 1T9PA 3KYXA 3A44A 1E8JA 1BQ9A 1SMMA 3KYVA 1R0HA 2HR5A 1LTLA 1FHHA 1IU5A 5IY0A 4AR3A 1VCXA 1RB9A 1T9OA 1RYTA 3KYYA 1S24A 7RXNA 1LKOA 1BRFA 1YK5A 1DVBA 3PZAA 1B2OA 1YUXA 1IROA 2M4YA 1CADA 1FHMA 1R0GA 8RXNA 1BFYA 4YWMA 4AR6A 1DX8A 3PWFA 3KYWA 2PVXA 1LKMA 5AI3A 4K9FA 2KN9A 2MS3A 4AR4A 1S2ZA 1SMUA 1B71A 4POGA 1RDVA 1BE7A 1C09A 1YV1A 4RXNA 1R0JA 1R0FA 2PYAA 2LCQA 1IRNA 2QL0A 1RDGA 2GMGA 3SS2A 3MPSA 4POFA 1ZRPA 2RDVA 5RXNA 4AR5A 3QVDA 2KKDA 2PVEA 5AI2A 1CAAA 1YK4A 1T9QA
chains in the Genus database with same CATH superfamily
4GS7D 1Y1VL 3KYUA 2APOB 4AI1A 4A3EL 3J7Z1 1SFOL 2XJVA 1I6HL 2EY4E 3ZG6A 2VL6A 4BY1L 2NVTL 1B2JA 1R0IA 1LKPA 3PIP1 3LWRB 3A44A 2JA7L 3P8BA 5FJ8L 1VZIA 3M3YL 4C3HL 2ERJA 1E8JA 5IYDL 3KYVA 1FHHA 1IU5A 5IY0A 2Z3QB 2JA6L 3K35A 4AHYA 4LHNA 1RB9A 1T9OA 3RZOL 3S1ML 5MFPA 3KYYA 3H97A 3J7Y1 3MSUA 1YK5A 1DVBA 3PIO1 1B2OA 4BBSL 1FHMA 5EINC 8RXNA 4U671 2JI3A 4AR6A 1DX8A 2NVQL 1TWFL 2B5ID 4AHXA 5DM61 1LKMA 4A3FL 2KN9A 3H3VM 3HJYB 4AR4A 2R92L 4X6AL 3LNLA 5MF6A 1C09A 3K7AL 4A3ML 3PKIA 1I3QL 3HOZL 5FLML 2PYAA 4UY81 2GMGA 2M6PA 2V0EA 1TWCL 1PFUA 3H9CA 3S1QL 3HOWL 3B0AB 1JYBA 3PKJA 5M5XL 4ME3A 5M3FL 4XGHA 3NFPI 1NNQA 1PZXA 3HOUL 3B08B 2WB1P 3WWNB 3PL5A 1RWDA 5MLC3 3GTQL 1QYBA 3JR7A 6RXNA 1IU6A 2DSXA 2VUML 4Y52L 1WJVA 1NXGA 2CKAA 3KYXA 3S14L 2E2IL 2L0ZA 2AUSB 2XJSA 3WWLA 2E2JL 1LTLA 2WAQP 4LHLA 4B8CD 3GTLL 4A3GL 3VPBE 3PO3L 1RYTA 1OWBA 4AI3A 4JAEA 5K2ME 4BBRL 2XJTA 5IYCL 1IROA 2M6OA 1CADA 2BE5D 5GADc 1R9TL 4YWMA 2NVYL 3PWFA 2C6BA 2JI2A 5AI3A 2ERSA 5GAHc 1S2ZA 1SMUA 4POGA 4A3JL 1YV1A 3GTML 1NXEA 4BXXL 1QQTA 4JAFA 1R0JA 4ZN1B 5DM71 3CQZL 1IRNA 3LWPB 3MPSA 5JVH1 2RDVA 2AQCA 2CR8A 1OWCA 5GAEc 3HKZP 3GTOL 1T9QA 4JAGA 4TVMA 2Y0SP 3HAXC 3IU3I 1VZHA 1TWHL 5C4XL 4YWLA 1IW7D 2H12A 3S15L 3RYGA 2CKCA 1BQ8A 5H1Sc 4A3KL 1YUZA 3RZTA 5C3EL 4TPUA 1WCML 1S30A 3PO2L 1T9PA 2A6ED 3S1NL 1Y1WL 2XJUA 2JA5L 5M5WL 4ZN3B 4A93L 2HVYC 1BQ9A 1SMMA 2XJQA 1R0HA 2HR5A 1PFYA 1ODHA 2JA8L 3QQCE 2A6HD 4AR3A 1VCXA 3LWQB 3H0GL 3H9BA 3S2DL 3S1RL 1LKOA 5C44L 2ZIXA 1YUXA 5MFZA 4XXBB 1R0GA 4A3DL 2R7ZL 1BFYA 2M4VA 2XJRA 2C6AA 1PFVA 4C3IL 3KYWA 2NYDA 5C4JL 2PSMC 4K9FA 4BY7L 2MS3A 3LWOB 5GAGc 3H99A 1RDVA 3S17L 4E6YA 4G6BA 2LCQA 2QL0A 1RDGA 3SS2A 1I50L 2J9UB 5AN9H 4POFA 1ZRPA 4V196 4A3CL 3GTKL 3I4NL 5RXNA 3GTPL 4AR5A 5MGNA 2PVEA 3S16L 1Z92B 5AI2A 2PMZP 2V3BB 3P2AA 1QCVA 3GTGL 5IP9L 4C2M1 4AI2A 3M4OL 1F4LA 2JI1A 1RYQA 3GTJL 1H7VA 1B13A 5IP7L 2Z3RB 4JADA 3RZ6A 1SMWA 5IYBL 3HJWB 3HOXL 4AHWA 4Y7NL 2K2DA 3FDJA 2V0FA 3FKIL 3HOVL 4A3IL 3MQKB 4QIWP 2XJPA 1TWAL 4A3BL 5EIOC 2O5JD 3LWVB 2R93L 4A3LL 4AYBP 4WFN1 1S24A 7RXNA 1BRFA 2A69D 5M3ML 3PZAA 2M4YA 2YU9L 2PPTA 4AHZA 3LPEB 2RFKB 2PVXA 3I4ML 3S2HL 1PFWA 4AI0A 1TWGL 1P7PA 1B71A 3HOYL 1BE7A 1VZGA 4RXNA 1R0FA 2NVXL 2A68D 4C3JL 2E2HL 1K83L 3QVDA 2KKDA 2B63L 2AYJA 3RZDL 1CAAA 1YK4A 5M5YL 5JVG1
chains in the Genus database with same CATH topology
4GS7D 1JYBA 2V3BB 3PKJA 3P2AA 1QCVA 4TVMA 3KYUA 4ME3A 3IU3I 4AI2A 1VZHA 4XGHA 3NFPI 1NNQA 4AI1A 3B08B 4YWLA 2JI1A 3J7Z1 1IW7D 1RYQA 3WWNB 2XJVA 2H12A 1H7VA 1RWDA 5MLC3 1B13A 2VL6A 3ZG6A 1QYBA 3RYGA 2CKCA 1BQ8A 6RXNA 2Z3RB 5H1Sc 4JADA 1B2JA 1YUZA 1SMWA 3RZ6A 3RZTA 1IU6A 2DSXA 4TPUA 1R0IA 1WJVA 4AHWA 1NXGA 1S30A 2CKAA 1LKPA 2K2DA 3PIP1 1T9PA 3KYXA 2A6ED 3A44A 3P8BA 1VZIA 2V0FA 2L0ZA 2XJUA 4ZN3B 2ERJA 1E8JA 1BQ9A 1SMMA 3KYVA 2XJSA 2XJQA 1R0HA 2XJPA 2HR5A 3WWLA 1LTLA 4LHLA 1ODHA 1FHHA 3QQCE 4B8CD 5EIOC 1IU5A 2A6HD 5IY0A 2Z3QB 4AR3A 2O5JD 1VCXA 3K35A 4AHYA 4LHNA 1RB9A 1T9OA 3VPBE 1RYTA 1OWBA 5MFPA 4AI3A 3KYYA 1S24A 4WFN1 4JAEA 1LKOA 7RXNA 5K2ME 3J7Y1 1BRFA 3MSUA 2A69D 1YK5A 1DVBA 2ZIXA 3PZAA 2XJTA 3PIO1 1B2OA 1YUXA 1IROA 2M6OA 2M4YA 5MFZA 1CADA 2BE5D 5GADc 1FHMA 4XXBB 1R0GA 2PPTA 5EINC 8RXNA 4U671 1BFYA 4YWMA 4AHZA 2M4VA 2JI3A 2XJRA 2C6AA 4AR6A 1DX8A 3PWFA 3LPEB 2C6BA 3KYWA 2NYDA 2JI2A 2PVXA 2B5ID 4AHXA 5DM61 1LKMA 5AI3A 2ERSA 2PSMC 4K9FA 5GAHc 2KN9A 4AI0A 2MS3A 5GAGc 4AR4A 1S2ZA 1SMUA 1B71A 3LNLA 4POGA 1RDVA 1BE7A 1C09A 1YV1A 5MF6A 1VZGA 4E6YA 4RXNA 1NXEA 3PKIA 1R0JA 4G6BA 4JAFA 1R0FA 4ZN1B 5DM71 2PYAA 2LCQA 1IRNA 2A68D 1RDGA 2QL0A 4UY81 2GMGA 3SS2A 2J9UB 2M6PA 3MPSA 1ZRPA 2RDVA 4POFA 5JVH1 5AN9H 4V196 2CR8A 5RXNA 1OWCA 2V0EA 4AR5A 5GAEc 5MGNA 3QVDA 2KKDA 2PVEA 1Z92B 2AYJA 5AI2A 1CAAA 1YK4A 1T9QA 4JAGA 3B0AB 5JVG1
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1JYB A;  2V3B B;  1QCV A;  3KYU A;  4ME3 A;  1NNQ A;  4YWL A;  1H7V A;  1RWD A;  1B13 A;  2VL6 A;  1QYB A;  3RYG A;  1BQ8 A;  6RXN A;  1B2J A;  1YUZ A;  1SMW A;  3RZ6 A;  3RZT A;  1IU6 A;  2DSX A;  4TPU A;  1R0I A;  1S30 A;  1LKP A;  2K2D A;  1T9P A;  3KYX A;  3A44 A;  1E8J A;  1BQ9 A;  1SMM A;  3KYV A;  1R0H A;  2HR5 A;  1LTL A;  1FHH A;  1IU5 A;  5IY0 A;  4AR3 A;  1VCX A;  1RB9 A;  1T9O A;  1RYT A;  3KYY A;  1S24 A;  7RXN A;  1LKO A;  1BRF A;  1YK5 A;  1DVB A;  3PZA A;  1B2O A;  1YUX A;  1IRO A;  2M4Y A;  1CAD A;  1FHM A;  1R0G A;  8RXN A;  1BFY A;  4YWM A;  4AR6 A;  1DX8 A;  3PWF A;  3KYW A;  2PVX A;  1LKM A;  5AI3 A;  4K9F A;  2KN9 A;  2MS3 A;  4AR4 A;  1S2Z A;  1SMU A;  1B71 A;  4POG A;  1RDV A;  1BE7 A;  1C09 A;  1YV1 A;  4RXN A;  1R0J A;  1R0F A;  2PYA A;  2LCQ A;  1IRN A;  2QL0 A;  1RDG A;  2GMG A;  3SS2 A;  3MPS A;  4POF A;  1ZRP A;  2RDV A;  5RXN A;  4AR5 A;  3QVD A;  2KKD A;  2PVE A;  5AI2 A;  1CAA A;  1YK4 A;  1T9Q A; 
#chains in the Genus database with same CATH topology
 4GS7 D;  1Y1V L;  3KYU A;  2APO B;  4AI1 A;  4A3E L;  3J7Z 1;  1SFO L;  2XJV A;  1I6H L;  2EY4 E;  3ZG6 A;  2VL6 A;  4BY1 L;  2NVT L;  1B2J A;  1R0I A;  1LKP A;  3PIP 1;  3LWR B;  3A44 A;  2JA7 L;  3P8B A;  5FJ8 L;  1VZI A;  3M3Y L;  4C3H L;  2ERJ A;  1E8J A;  5IYD L;  3KYV A;  1FHH A;  1IU5 A;  5IY0 A;  2Z3Q B;  2JA6 L;  3K35 A;  4AHY A;  4LHN A;  1RB9 A;  1T9O A;  3RZO L;  3S1M L;  5MFP A;  3KYY A;  3H97 A;  3J7Y 1;  3MSU A;  1YK5 A;  1DVB A;  3PIO 1;  1B2O A;  4BBS L;  1FHM A;  5EIN C;  8RXN A;  4U67 1;  2JI3 A;  4AR6 A;  1DX8 A;  2NVQ L;  1TWF L;  2B5I D;  4AHX A;  5DM6 1;  1LKM A;  4A3F L;  2KN9 A;  3H3V M;  3HJY B;  4AR4 A;  2R92 L;  4X6A L;  3LNL A;  5MF6 A;  1C09 A;  3K7A L;  4A3M L;  3PKI A;  1I3Q L;  3HOZ L;  5FLM L;  2PYA A;  4UY8 1;  2GMG A;  2M6P A;  2V0E A;  1TWC L;  1PFU A;  3H9C A;  3S1Q L;  3HOW L;  3B0A B;  1JYB A;  3PKJ A;  5M5X L;  4ME3 A;  5M3F L;  4XGH A;  3NFP I;  1NNQ A;  1PZX A;  3HOU L;  3B08 B;  2WB1 P;  3WWN B;  3PL5 A;  1RWD A;  5MLC 3;  3GTQ L;  1QYB A;  3JR7 A;  6RXN A;  1IU6 A;  2DSX A;  2VUM L;  4Y52 L;  1WJV A;  1NXG A;  2CKA A;  3KYX A;  3S14 L;  2E2I L;  2L0Z A;  2AUS B;  2XJS A;  3WWL A;  2E2J L;  1LTL A;  2WAQ P;  4LHL A;  4B8C D;  3GTL L;  4A3G L;  3VPB E;  3PO3 L;  1RYT A;  1OWB A;  4AI3 A;  4JAE A;  5K2M E;  4BBR L;  2XJT A;  5IYC L;  1IRO A;  2M6O A;  1CAD A;  2BE5 D;  5GAD c;  1R9T L;  4YWM A;  2NVY L;  3PWF A;  2C6B A;  2JI2 A;  5AI3 A;  2ERS A;  5GAH c;  1S2Z A;  1SMU A;  4POG A;  4A3J L;  1YV1 A;  3GTM L;  1NXE A;  4BXX L;  1QQT A;  4JAF A;  1R0J A;  4ZN1 B;  5DM7 1;  3CQZ L;  1IRN A;  3LWP B;  3MPS A;  5JVH 1;  2RDV A;  2AQC A;  2CR8 A;  1OWC A;  5GAE c;  3HKZ P;  3GTO L;  1T9Q A;  4JAG A;  4TVM A;  2Y0S P;  3HAX C;  3IU3 I;  1VZH A;  1TWH L;  5C4X L;  4YWL A;  1IW7 D;  2H12 A;  3S15 L;  3RYG A;  2CKC A;  1BQ8 A;  5H1S c;  4A3K L;  1YUZ A;  3RZT A;  5C3E L;  4TPU A;  1WCM L;  1S30 A;  3PO2 L;  1T9P A;  2A6E D;  3S1N L;  1Y1W L;  2XJU A;  2JA5 L;  5M5W L;  4ZN3 B;  4A93 L;  2HVY C;  1BQ9 A;  1SMM A;  2XJQ A;  1R0H A;  2HR5 A;  1PFY A;  1ODH A;  2JA8 L;  3QQC E;  2A6H D;  4AR3 A;  1VCX A;  3LWQ B;  3H0G L;  3H9B A;  3S2D L;  3S1R L;  1LKO A;  5C44 L;  2ZIX A;  1YUX A;  5MFZ A;  4XXB B;  1R0G A;  4A3D L;  2R7Z L;  1BFY A;  2M4V A;  2XJR A;  2C6A A;  1PFV A;  4C3I L;  3KYW A;  2NYD A;  5C4J L;  2PSM C;  4K9F A;  4BY7 L;  2MS3 A;  3LWO B;  5GAG c;  3H99 A;  1RDV A;  3S17 L;  4E6Y A;  4G6B A;  2LCQ A;  2QL0 A;  1RDG A;  3SS2 A;  1I50 L;  2J9U B;  5AN9 H;  4POF A;  1ZRP A;  4V19 6;  4A3C L;  3GTK L;  3I4N L;  5RXN A;  3GTP L;  4AR5 A;  5MGN A;  2PVE A;  3S16 L;  1Z92 B;  5AI2 A;  2PMZ P;  2V3B B;  3P2A A;  1QCV A;  3GTG L;  5IP9 L;  4C2M 1;  4AI2 A;  3M4O L;  1F4L A;  2JI1 A;  1RYQ A;  3GTJ L;  1H7V A;  1B13 A;  5IP7 L;  2Z3R B;  4JAD A;  3RZ6 A;  1SMW A;  5IYB L;  3HJW B;  3HOX L;  4AHW A;  4Y7N L;  2K2D A;  3FDJ A;  2V0F A;  3FKI L;  3HOV L;  4A3I L;  3MQK B;  4QIW P;  2XJP A;  1TWA L;  4A3B L;  5EIO C;  2O5J D;  3LWV B;  2R93 L;  4A3L L;  4AYB P;  4WFN 1;  1S24 A;  7RXN A;  1BRF A;  2A69 D;  5M3M L;  3PZA A;  2M4Y A;  2YU9 L;  2PPT A;  4AHZ A;  3LPE B;  2RFK B;  2PVX A;  3I4M L;  3S2H L;  1PFW A;  4AI0 A;  1TWG L;  1P7P A;  1B71 A;  3HOY L;  1BE7 A;  1VZG A;  4RXN A;  1R0F A;  2NVX L;  2A68 D;  4C3J L;  2E2H L;  1K83 L;  3QVD A;  2KKD A;  2B63 L;  2AYJ A;  3RZD L;  1CAA A;  1YK4 A;  5M5Y L;  5JVG 1; 
#chains in the Genus database with same CATH homology
 4GS7 D;  1JYB A;  2V3B B;  3PKJ A;  3P2A A;  1QCV A;  4TVM A;  3KYU A;  4ME3 A;  3IU3 I;  4AI2 A;  1VZH A;  4XGH A;  3NFP I;  1NNQ A;  4AI1 A;  3B08 B;  4YWL A;  2JI1 A;  3J7Z 1;  1IW7 D;  1RYQ A;  3WWN B;  2XJV A;  2H12 A;  1H7V A;  1RWD A;  5MLC 3;  1B13 A;  2VL6 A;  3ZG6 A;  1QYB A;  3RYG A;  2CKC A;  1BQ8 A;  6RXN A;  2Z3R B;  5H1S c;  4JAD A;  1B2J A;  1YUZ A;  1SMW A;  3RZ6 A;  3RZT A;  1IU6 A;  2DSX A;  4TPU A;  1R0I A;  1WJV A;  4AHW A;  1NXG A;  1S30 A;  2CKA A;  1LKP A;  2K2D A;  3PIP 1;  1T9P A;  3KYX A;  2A6E D;  3A44 A;  3P8B A;  1VZI A;  2V0F A;  2L0Z A;  2XJU A;  4ZN3 B;  2ERJ A;  1E8J A;  1BQ9 A;  1SMM A;  3KYV A;  2XJS A;  2XJQ A;  1R0H A;  2XJP A;  2HR5 A;  3WWL A;  1LTL A;  4LHL A;  1ODH A;  1FHH A;  3QQC E;  4B8C D;  5EIO C;  1IU5 A;  2A6H D;  5IY0 A;  2Z3Q B;  4AR3 A;  2O5J D;  1VCX A;  3K35 A;  4AHY A;  4LHN A;  1RB9 A;  1T9O A;  3VPB E;  1RYT A;  1OWB A;  5MFP A;  4AI3 A;  3KYY A;  1S24 A;  4WFN 1;  4JAE A;  1LKO A;  7RXN A;  5K2M E;  3J7Y 1;  1BRF A;  3MSU A;  2A69 D;  1YK5 A;  1DVB A;  2ZIX A;  3PZA A;  2XJT A;  3PIO 1;  1B2O A;  1YUX A;  1IRO A;  2M6O A;  2M4Y A;  5MFZ A;  1CAD A;  2BE5 D;  5GAD c;  1FHM A;  4XXB B;  1R0G A;  2PPT A;  5EIN C;  8RXN A;  4U67 1;  1BFY A;  4YWM A;  4AHZ A;  2M4V A;  2JI3 A;  2XJR A;  2C6A A;  4AR6 A;  1DX8 A;  3PWF A;  3LPE B;  2C6B A;  3KYW A;  2NYD A;  2JI2 A;  2PVX A;  2B5I D;  4AHX A;  5DM6 1;  1LKM A;  5AI3 A;  2ERS A;  2PSM C;  4K9F A;  5GAH c;  2KN9 A;  4AI0 A;  2MS3 A;  5GAG c;  4AR4 A;  1S2Z A;  1SMU A;  1B71 A;  3LNL A;  4POG A;  1RDV A;  1BE7 A;  1C09 A;  1YV1 A;  5MF6 A;  1VZG A;  4E6Y A;  4RXN A;  1NXE A;  3PKI A;  1R0J A;  4G6B A;  4JAF A;  1R0F A;  4ZN1 B;  5DM7 1;  2PYA A;  2LCQ A;  1IRN A;  2A68 D;  1RDG A;  2QL0 A;  4UY8 1;  2GMG A;  3SS2 A;  2J9U B;  2M6P A;  3MPS A;  1ZRP A;  2RDV A;  4POF A;  5JVH 1;  5AN9 H;  4V19 6;  2CR8 A;  5RXN A;  1OWC A;  2V0E A;  4AR5 A;  5GAE c;  5MGN A;  3QVD A;  2KKD A;  2PVE A;  1Z92 B;  2AYJ A;  5AI2 A;  1CAA A;  1YK4 A;  1T9Q A;  4JAG A;  3B0A B;  5JVG 1; 
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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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