4BY1D

Elongating rna polymerase ii-bye1 tld complex soaked with ampcpp
Total Genus 46
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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
46
sequence length
218
structure length
177
Chain Sequence
STSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY
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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 tags Transcription
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
publication title Structures of RNA Polymerase II Complexes with Bye1, a Chromatin-Binding Phf3/Dido1 Homologue
pubmed doi rcsb
source organism Saccharomyces cerevisiae
total genus 46
structure length 177
sequence length 218
ec nomenclature
pdb deposition date 2013-07-17

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D PF03874 RNA_pol_Rpb4 RNA polymerase Rpb4
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.1250.40 Mainly Alpha Up-down Bundle Growth Hormone; Chain: A; Growth Hormone; Chain: A; 4by1D02
3HOYD 1Y1VD 4BBRD 3HOXD 1Y14A 5IYDD 3HOUD 4A3ID 2JA8D 4A3FD 4BY1D 1Y1WD 2C35A 5IYBD 5IP9D 2R7ZD 4A3GD 3FKID 4A3KD 2JA5D 5C3ED 4A3CD 5IYCD 3AYHA 4A3DD 5C4XD 5FLMD 4A3ED 4BBSD 4A3MD 2B63D 3PO2D 4A93D 2JA6D 3I4ND 2VUMD 2R93D 4BXXD 5C44D 2R92D 4A3JD 2JA7D 3PO3D 5IP7D 4A3BD 4BY7D 3I4MD 4A3LD 3H0GD 1WCMD 3HOVD 3HOZD 3HOWD 3H3VE
chains in the Genus database with same CATH superfamily
4TPGA 3HOXD 1BUYA 4RS1A 3DI2A 2LMSA 3QWRB 1F6FA 4YBQA 4LDSA 2O26A 3DI3A 4GS7A 4MHLA 3BESL 4U4TA 4WRLB 3HHCA 1IJZA 2L3OA 2CFQA 4NEMA 1A22A 3IRHA 1D9GA 4ZWBA 2ILKA 4IKYA 5IP9D 1FG9A 4A3CD 3HMXB 2B91A 1BCNA 3NPZA 2VUMD 1I1RB 4NN6A 3O7PA 1F45B 5D58A 4APSA 2B8YA 4O6KA 4ZYRA 5IYDD 3HOUD 1RHGA 1V7MV 2C35A 3NCBA 4IU8A 1ITIA 2Q7NB 4OAAA 1VLKA 5FLMD 2O6IA 2GMFA 4DKEA 4A3MD 2JA6D 4EXNA 1CSGA 5TS9A 4X51A 2O27A 1KF9A 4IU9A 2CFPA 5EQHA 2CYKA 2HYMB 1LKIA 1ITLA 2LAGA 4LRLA 3UEZE 4JREA 1WU3I 3D48P 1BGDA 5A2OA 1ETEA 2V8NA 3L5WI 1BGEA 2JA5D 1FYHA 5EQIA 4IKZA 1CYLA 4ZW9A 2B8XA 3EJJA 4YB9D 3HOWD 3BPNA 4DKCA 1IL6A 2IL6A 2Z3QA 5LQBA 1PV7A 4GBZA 3VA2A 2H24A 1Y1WD 3QT2C 4GC0A 1PW6A 3DLQI 1PVHB 1B5LA 1M49A 4PYPA 4TPJA 1JLIA 4CNIC 1HWHA 3QAZA 1M48A 1LQSL 1GA3A 2Z3RA 4YPGC 1Y6NL 1M4BA 3WDOA 1HWGA 3G6DA 4XNJA 1P9MB 4IKWA 4A3KD 1IK0A 1AX8A 1J7VL 4YUEC 3LB6B 1HZIA 4FA8E 2D9QA 3I4MD 4W6VA 1PGRA 3H3VE 1V7NV 4YDYI 2ERJD 1AXIA 1RFBA 3UF2A 1EKUA 3DGCL 5D70A 5D59A 4NI9A 1HIJA 4NKQC 4D2CA 3NCEA 3HOVD 3HOYD 1BGCA 3O7QA 3HHRA 2OQPA 2D48A 1RW5A 2L3YA 5FUCA 1Z92A 5D6KA 1HGUA 5L6YC 4D2BA 4DKDA 4ZS7A 2R93D 1BP3A 3PO3D 1CN4C 4A3LD 1QVNA 4OH3A 3WCYI 4DOHA 1Y14A 4JA3A 1M47A 2XUTA 3L5XA 2E9WC 3LB6A 4J05A 1PV6A 4NEJA 5C44D 4A3BD 3OQ3A 4ZWCA 1WCMD 5D72A 3PIWA 1SCFA 4NN7A 3N0PA 4A3ID 4U4WA 1PY2A 4ZF7A 5C7XA 5KNHI 1M4AA 1CD9A 3AYHA 3D85C 5A2NA 1ALUA 4A3ED 3N06A 3UX9A 4A93D 4PS4A 5GXBA 4XNIA 1HUWA 3BPOA 4O9HA 4I77Z 1Y1VD 4DKFA 4TPHA 2R7ZD 3D87A 1ITFA 2B8UA 5E4EA 1EMRA 1EXZA 1Y6KL 3NCCA 3UF5A 1Y6ML 4A3DD 1N1FA 4A3FD 4BY1D 4NN5A 4UVMA 1D9CA 5IYCD 5C4XD 3PIVA 3QB1A 3TGXB 4LEPA 3I4ND 4A3JD 1GNCA 3HOZD 3SE3B 4BBRD 2PSMA 1RCBA 3OG4A 1ILKA 1YKBA 3EW3A 3QB7A 4YQXA 4BBSD 1EVSA 1PW4A 2INTA 2KZ1A 2JA7D 3BPLA 3S9DA 1NBPA 4GRWA 3B5KA 2JA8D 2Q14A 4IKVA 3SE4B 5IYBD 1A7MA 1M4RA 3OG6A 2B63D 1LK3A 2B5IA 2R92D 3INKC 1IARA 5EQGA 1HIKA 1IRLA 1HULA 2Q98A 2B90A 1BBNA 4IKXA 1AU1A 5FHXA 1Z7CA 4GBYA 5C3ED 3Q1SI 4JR9A 1EERA 2B8ZA 5D28B 2XQBA 1CNT1 3PO2D 2Y5YA 4NI7A 5IP7D 3H0GD 5D22A 3DUHC 3G9VB 1INRA 4J4LC 1ITMA 1M4CA 3NCFA 4Q65A 3MZGA 4D2DA 4A3GD 3FKID 4QIQA 4Z5RD 4EXPA 4BXXD 4BY7D 5D71A 5C65A 4U4VA
chains in the Genus database with same CATH topology
1IL6A 2IL6A 2Z3QA 4BBRD 3WCYI 3HOXD 1BUYA 4DOHA 1Y14A 2PSMA 5LQBA 4RS1A 3DI2A 2LMSA 3VA2A 2H24A 1Y1WD 3QT2C 1RCBA 3QWRB 3OG4A 1ILKA 1PW6A 1M47A 1YKBA 3DLQI 3EW3A 1PVHB 3QB7A 1F6FA 4YQXA 4BBSD 2O26A 3L5XA 3DI3A 2E9WC 3LB6A 1EVSA 1B5LA 4NEJA 1M49A 4GS7A 1JLIA 5C44D 2INTA 4CNIC 1HWHA 2KZ1A 4MHLA 2JA7D 3BPLA 3QAZA 3S9DA 1M48A 4A3BD 3OQ3A 3BESL 1WCMD 4WRLB 1LQSL 1GA3A 2Z3RA 1NBPA 4YPGC 5D72A 4GRWA 3B5KA 1Y6NL 1M4BA 3HHCA 1IJZA 2L3OA 3PIWA 1HWGA 1SCFA 4NEMA 4NN7A 1A22A 3G6DA 3N0PA 4A3ID 3IRHA 2JA8D 1P9MB 1D9GA 2ILKA 2Q14A 1PY2A 3SE4B 5IYBD 4ZF7A 1A7MA 5IP9D 5C7XA 5KNHI 1FG9A 1M4RA 4A3KD 3OG6A 4A3CD 1M4AA 1CD9A 3AYHA 3D85C 3HMXB 1ALUA 1IK0A 4A3ED 1AX8A 3N06A 3UX9A 1J7VL 4YUEC 2B63D 4A93D 1LK3A 2B91A 1BCNA 3NPZA 4PS4A 2VUMD 3LB6B 2B5IA 2R92D 1HZIA 4FA8E 1I1RB 2D9QA 3I4MD 3INKC 1IARA 1HUWA 3BPOA 4O9HA 4NN6A 4I77Z 1PGRA 3H3VE 1V7NV 1F45B 1IRLA 1HIKA 1Y1VD 1HULA 2ERJD 4DKFA 1AXIA 4YDYI 2B8YA 4O6KA 1RFBA 3UF2A 5IYDD 3HOUD 2Q98A 2B90A 1RHGA 1BBNA 2C35A 3NCBA 1AU1A 5FHXA 2R7ZD 1Z7CA 3D87A 1EKUA 5C3ED 3Q1SI 3DGCL 1ITIA 2Q7NB 1EERA 2B8ZA 1ITFA 1VLKA 2B8UA 5D28B 5FLMD 5D70A 5E4EA 2O6IA 2XQBA 2GMFA 4DKEA 1EMRA 1CNT1 1EXZA 4A3MD 2JA6D 1Y6KL 3NCCA 3PO2D 3UF5A 4EXNA 4NI7A 1CSGA 5TS9A 4X51A 1HIJA 4NI9A 5IP7D 1Y6ML 2O27A 4NKQC 1KF9A 3H0GD 3HOVD 3NCEA 2CYKA 2HYMB 4A3DD 1LKIA 1ITLA 1N1FA 3HOYD 2LAGA 5D22A 1BGCA 3DUHC 4LRLA 3HHRA 3G9VB 1INRA 4J4LC 3UEZE 1WU3I 2OQPA 1ITMA 1M4CA 3D48P 1BGDA 2D48A 3NCFA 4A3FD 4BY1D 1RW5A 1ETEA 2L3YA 3MZGA 4NN5A 5FUCA 1Z92A 3L5WI 1BGEA 1HGUA 3FKID 4A3GD 5L6YC 2JA5D 1D9CA 1FYHA 5IYCD 4DKDA 5C4XD 3PIVA 4Z5RD 3QB1A 3TGXB 4EXPA 4ZS7A 1CYLA 3I4ND 2R93D 4BXXD 1BP3A 2B8XA 4A3JD 3PO3D 3EJJA 4BY7D 5D71A 1CN4C 4A3LD 1GNCA 1QVNA 3HOZD 3HOWD 3SE3B 1V7MV 3BPNA 4DKCA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3HOY D;  1Y1V D;  4BBR D;  3HOX D;  1Y14 A;  5IYD D;  3HOU D;  4A3I D;  2JA8 D;  4A3F D;  4BY1 D;  1Y1W D;  2C35 A;  5IYB D;  5IP9 D;  2R7Z D;  4A3G D;  3FKI D;  4A3K D;  2JA5 D;  5C3E D;  4A3C D;  5IYC D;  3AYH A;  4A3D D;  5C4X D;  5FLM D;  4A3E D;  4BBS D;  4A3M D;  2B63 D;  3PO2 D;  4A93 D;  2JA6 D;  3I4N D;  2VUM D;  2R93 D;  4BXX D;  5C44 D;  2R92 D;  4A3J D;  2JA7 D;  3PO3 D;  5IP7 D;  4A3B D;  4BY7 D;  3I4M D;  4A3L D;  3H0G D;  1WCM D;  3HOV D;  3HOZ D;  3HOW D;  3H3V E; 
#chains in the Genus database with same CATH topology
 4TPG A;  3HOX D;  1BUY A;  4RS1 A;  3DI2 A;  2LMS A;  3QWR B;  1F6F A;  4YBQ A;  4LDS A;  2O26 A;  3DI3 A;  4GS7 A;  4MHL A;  3BES L;  4U4T A;  4WRL B;  3HHC A;  1IJZ A;  2L3O A;  2CFQ A;  4NEM A;  1A22 A;  3IRH A;  1D9G A;  4ZWB A;  2ILK A;  4IKY A;  5IP9 D;  1FG9 A;  4A3C D;  3HMX B;  2B91 A;  1BCN A;  3NPZ A;  2VUM D;  1I1R B;  4NN6 A;  3O7P A;  1F45 B;  5D58 A;  4APS A;  2B8Y A;  4O6K A;  4ZYR A;  5IYD D;  3HOU D;  1RHG A;  1V7M V;  2C35 A;  3NCB A;  4IU8 A;  1ITI A;  2Q7N B;  4OAA A;  1VLK A;  5FLM D;  2O6I A;  2GMF A;  4DKE A;  4A3M D;  2JA6 D;  4EXN A;  1CSG A;  5TS9 A;  4X51 A;  2O27 A;  1KF9 A;  4IU9 A;  2CFP A;  5EQH A;  2CYK A;  2HYM B;  1LKI A;  1ITL A;  2LAG A;  4LRL A;  3UEZ E;  4JRE A;  1WU3 I;  3D48 P;  1BGD A;  5A2O A;  1ETE A;  2V8N A;  3L5W I;  1BGE A;  2JA5 D;  1FYH A;  5EQI A;  4IKZ A;  1CYL A;  4ZW9 A;  2B8X A;  3EJJ A;  4YB9 D;  3HOW D;  3BPN A;  4DKC A;  1IL6 A;  2IL6 A;  2Z3Q A;  5LQB A;  1PV7 A;  4GBZ A;  3VA2 A;  2H24 A;  1Y1W D;  3QT2 C;  4GC0 A;  1PW6 A;  3DLQ I;  1PVH B;  1B5L A;  1M49 A;  4PYP A;  4TPJ A;  1JLI A;  4CNI C;  1HWH A;  3QAZ A;  1M48 A;  1LQS L;  1GA3 A;  2Z3R A;  4YPG C;  1Y6N L;  1M4B A;  3WDO A;  1HWG A;  3G6D A;  4XNJ A;  1P9M B;  4IKW A;  4A3K D;  1IK0 A;  1AX8 A;  1J7V L;  4YUE C;  3LB6 B;  1HZI A;  4FA8 E;  2D9Q A;  3I4M D;  4W6V A;  1PGR A;  3H3V E;  1V7N V;  4YDY I;  2ERJ D;  1AXI A;  1RFB A;  3UF2 A;  1EKU A;  3DGC L;  5D70 A;  5D59 A;  4NI9 A;  1HIJ A;  4NKQ C;  4D2C A;  3NCE A;  3HOV D;  3HOY D;  1BGC A;  3O7Q A;  3HHR A;  2OQP A;  2D48 A;  1RW5 A;  2L3Y A;  5FUC A;  1Z92 A;  5D6K A;  1HGU A;  5L6Y C;  4D2B A;  4DKD A;  4ZS7 A;  2R93 D;  1BP3 A;  3PO3 D;  1CN4 C;  4A3L D;  1QVN A;  4OH3 A;  3WCY I;  4DOH A;  1Y14 A;  4JA3 A;  1M47 A;  2XUT A;  3L5X A;  2E9W C;  3LB6 A;  4J05 A;  1PV6 A;  4NEJ A;  5C44 D;  4A3B D;  3OQ3 A;  4ZWC A;  1WCM D;  5D72 A;  3PIW A;  1SCF A;  4NN7 A;  3N0P A;  4A3I D;  4U4W A;  1PY2 A;  4ZF7 A;  5C7X A;  5KNH I;  1M4A A;  1CD9 A;  3AYH A;  3D85 C;  5A2N A;  1ALU A;  4A3E D;  3N06 A;  3UX9 A;  4A93 D;  4PS4 A;  5GXB A;  4XNI A;  1HUW A;  3BPO A;  4O9H A;  4I77 Z;  1Y1V D;  4DKF A;  4TPH A;  2R7Z D;  3D87 A;  1ITF A;  2B8U A;  5E4E A;  1EMR A;  1EXZ A;  1Y6K L;  3NCC A;  3UF5 A;  1Y6M L;  4A3D D;  1N1F A;  4A3F D;  4BY1 D;  4NN5 A;  4UVM A;  1D9C A;  5IYC D;  5C4X D;  3PIV A;  3QB1 A;  3TGX B;  4LEP A;  3I4N D;  4A3J D;  1GNC A;  3HOZ D;  3SE3 B;  4BBR D;  2PSM A;  1RCB A;  3OG4 A;  1ILK A;  1YKB A;  3EW3 A;  3QB7 A;  4YQX A;  4BBS D;  1EVS A;  1PW4 A;  2INT A;  2KZ1 A;  2JA7 D;  3BPL A;  3S9D A;  1NBP A;  4GRW A;  3B5K A;  2JA8 D;  2Q14 A;  4IKV A;  3SE4 B;  5IYB D;  1A7M A;  1M4R A;  3OG6 A;  2B63 D;  1LK3 A;  2B5I A;  2R92 D;  3INK C;  1IAR A;  5EQG A;  1HIK A;  1IRL A;  1HUL A;  2Q98 A;  2B90 A;  1BBN A;  4IKX A;  1AU1 A;  5FHX A;  1Z7C A;  4GBY A;  5C3E D;  3Q1S I;  4JR9 A;  1EER A;  2B8Z A;  5D28 B;  2XQB A;  1CNT 1;  3PO2 D;  2Y5Y A;  4NI7 A;  5IP7 D;  3H0G D;  5D22 A;  3DUH C;  3G9V B;  1INR A;  4J4L C;  1ITM A;  1M4C A;  3NCF A;  4Q65 A;  3MZG A;  4D2D A;  4A3G D;  3FKI D;  4QIQ A;  4Z5R D;  4EXP A;  4BXX D;  4BY7 D;  5D71 A;  5C65 A;  4U4V A; 
#chains in the Genus database with same CATH homology
 1IL6 A;  2IL6 A;  2Z3Q A;  4BBR D;  3WCY I;  3HOX D;  1BUY A;  4DOH A;  1Y14 A;  2PSM A;  5LQB A;  4RS1 A;  3DI2 A;  2LMS A;  3VA2 A;  2H24 A;  1Y1W D;  3QT2 C;  1RCB A;  3QWR B;  3OG4 A;  1ILK A;  1PW6 A;  1M47 A;  1YKB A;  3DLQ I;  3EW3 A;  1PVH B;  3QB7 A;  1F6F A;  4YQX A;  4BBS D;  2O26 A;  3L5X A;  3DI3 A;  2E9W C;  3LB6 A;  1EVS A;  1B5L A;  4NEJ A;  1M49 A;  4GS7 A;  1JLI A;  5C44 D;  2INT A;  4CNI C;  1HWH A;  2KZ1 A;  4MHL A;  2JA7 D;  3BPL A;  3QAZ A;  3S9D A;  1M48 A;  4A3B D;  3OQ3 A;  3BES L;  1WCM D;  4WRL B;  1LQS L;  1GA3 A;  2Z3R A;  1NBP A;  4YPG C;  5D72 A;  4GRW A;  3B5K A;  1Y6N L;  1M4B A;  3HHC A;  1IJZ A;  2L3O A;  3PIW A;  1HWG A;  1SCF A;  4NEM A;  4NN7 A;  1A22 A;  3G6D A;  3N0P A;  4A3I D;  3IRH A;  2JA8 D;  1P9M B;  1D9G A;  2ILK A;  2Q14 A;  1PY2 A;  3SE4 B;  5IYB D;  4ZF7 A;  1A7M A;  5IP9 D;  5C7X A;  5KNH I;  1FG9 A;  1M4R A;  4A3K D;  3OG6 A;  4A3C D;  1M4A A;  1CD9 A;  3AYH A;  3D85 C;  3HMX B;  1ALU A;  1IK0 A;  4A3E D;  1AX8 A;  3N06 A;  3UX9 A;  1J7V L;  4YUE C;  2B63 D;  4A93 D;  1LK3 A;  2B91 A;  1BCN A;  3NPZ A;  4PS4 A;  2VUM D;  3LB6 B;  2B5I A;  2R92 D;  1HZI A;  4FA8 E;  1I1R B;  2D9Q A;  3I4M D;  3INK C;  1IAR A;  1HUW A;  3BPO A;  4O9H A;  4NN6 A;  4I77 Z;  1PGR A;  3H3V E;  1V7N V;  1F45 B;  1IRL A;  1HIK A;  1Y1V D;  1HUL A;  2ERJ D;  4DKF A;  1AXI A;  4YDY I;  2B8Y A;  4O6K A;  1RFB A;  3UF2 A;  5IYD D;  3HOU D;  2Q98 A;  2B90 A;  1RHG A;  1BBN A;  2C35 A;  3NCB A;  1AU1 A;  5FHX A;  2R7Z D;  1Z7C A;  3D87 A;  1EKU A;  5C3E D;  3Q1S I;  3DGC L;  1ITI A;  2Q7N B;  1EER A;  2B8Z A;  1ITF A;  1VLK A;  2B8U A;  5D28 B;  5FLM D;  5D70 A;  5E4E A;  2O6I A;  2XQB A;  2GMF A;  4DKE A;  1EMR A;  1CNT 1;  1EXZ A;  4A3M D;  2JA6 D;  1Y6K L;  3NCC A;  3PO2 D;  3UF5 A;  4EXN A;  4NI7 A;  1CSG A;  5TS9 A;  4X51 A;  1HIJ A;  4NI9 A;  5IP7 D;  1Y6M L;  2O27 A;  4NKQ C;  1KF9 A;  3H0G D;  3HOV D;  3NCE A;  2CYK A;  2HYM B;  4A3D D;  1LKI A;  1ITL A;  1N1F A;  3HOY D;  2LAG A;  5D22 A;  1BGC A;  3DUH C;  4LRL A;  3HHR A;  3G9V B;  1INR A;  4J4L C;  3UEZ E;  1WU3 I;  2OQP A;  1ITM A;  1M4C A;  3D48 P;  1BGD A;  2D48 A;  3NCF A;  4A3F D;  4BY1 D;  1RW5 A;  1ETE A;  2L3Y A;  3MZG A;  4NN5 A;  5FUC A;  1Z92 A;  3L5W I;  1BGE A;  1HGU A;  3FKI D;  4A3G D;  5L6Y C;  2JA5 D;  1D9C A;  1FYH A;  5IYC D;  4DKD A;  5C4X D;  3PIV A;  4Z5R D;  3QB1 A;  3TGX B;  4EXP A;  4ZS7 A;  1CYL A;  3I4N D;  2R93 D;  4BXX D;  1BP3 A;  2B8X A;  4A3J D;  3PO3 D;  3EJJ A;  4BY7 D;  5D71 A;  1CN4 C;  4A3L D;  1GNC A;  1QVN A;  3HOZ D;  3HOW D;  3SE3 B;  1V7M V;  3BPN A;  4DKC 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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