4BY7D

Elongating rna polymerase ii-bye1 tld complex
Total Genus 49
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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
49
sequence length
218
structure length
178
Chain Sequence
STSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKETREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY
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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 Structures of RNA polymerase II complexes with Bye1, a chromatin-binding PHF3/DIDO homologue.
pubmed doi rcsb
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
molecule tags Transcription
source organism Saccharomyces cerevisiae
total genus 49
structure length 178
sequence length 218
ec nomenclature
pdb deposition date 2013-07-18

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; 4by7D02
5IP7D 1WCMD 3HOWD 4BXXD 3H3VE 2VUMD 2B63D 1Y14A 1Y1WD 4A3BD 4A3KD 3AYHA 5C4XD 1Y1VD 3HOZD 4BBSD 3HOXD 5IYDD 4A3LD 4A3GD 2R93D 5IYBD 3H0GD 2C35A 3HOUD 4BY7D 3FKID 4A3CD 5FLMD 2JA5D 3HOVD 2JA7D 4A93D 4A3ID 4A3ED 5C44D 2R7ZD 3PO2D 4BBRD 4BY1D 5IP9D 5C3ED 4A3MD 4A3DD 5IYCD 3I4ND 3PO3D 2JA6D 4A3JD 3I4MD 2R92D 4A3FD 2JA8D 3HOYD
chains in the Genus database with same CATH superfamily
5IP7D 4CNIC 4LDSA 5A2OA 1A22A 3D87A 2CFQA 1IK0A 3D48P 3QB7A 4Q65A 1PV7A 3D85C 2O6IA 2D9QA 3BPNA 1ALUA 1HWGA 4IU8A 4JREA 1FYHA 1LQSL 1F6FA 4I77Z 1ITIA 2ILKA 4BXXD 1AU1A 2XUTA 1BGCA 4ZF7A 1EKUA 4YDYI 3QB1A 5TS9A 1QVNA 3SE3B 3QT2C 4LEPA 1CD9A 1SCFA 2B63D 1CSGA 1YKBA 4D2DA 2INTA 3Q1SI 1M4CA 1Z7CA 1IARA 4NKQC 3O7PA 1ITLA 4GBYA 4NN7A 1D9GA 1CYLA 3PO3D 4WRLB 3WCYI 1M48A 1PW4A 5FUCA 4IKWA 1KF9A 1RCBA 1PW6A 4QIQA 2B8XA 3BESL 1VLKA 1HUWA 1BGDA 4J05A 4YPGC 3QAZA 4A3JD 3QWRB 3DI2A 4ZYRA 2GMFA 1BGEA 1Y14A 1BBNA 3MZGA 1GNCA 4IKZA 1A7MA 2LMSA 2Q14A 3O7QA 2B5IA 1ETEA 3PO2D 5D70A 2CYKA 3HHRA 1HWHA 1CN4C 3HOYD 2R7ZD 1ILKA 2HYMB 3NCFA 4A3KD 4BBSD 3DI3A 1HIJA 3DUHC 1NBPA 1IJZA 4TPJA 4NI7A 3PIWA 2D48A 2JA5D 1WU3I 2Q98A 4EXPA 1V7NV 4IKXA 2PSMA 1BCNA 4U4WA 1BUYA 4FA8E 3G9VB 5D58A 1M4BA 4DKDA 1RW5A 3LB6A 3OQ3A 1HULA 3I4MD 4EXNA 2E9WC 4D2BA 1HZIA 3VA2A 1J7VL 3S9DA 5EQHA 3OG4A 5D28B 3UF2A 1AX8A 5C65A 2XQBA 3UF5A 4GBZA 2KZ1A 1WCMD 2B90A 2V8NA 2VUMD 3UEZE 4A3BD 1Y1VD 5IYDD 4NEJA 1INRA 5FLMD 1JLIA 4NN5A 4U4TA 5GXBA 2ERJD 5D22A 2IL6A 1CNT1 2R92D 1P9MB 2LAGA 3AYHA 4DKEA 1GA3A 3INKC 1Y1WD 1ITMA 4A3GD 3H0GD 3DGCL 4O6KA 1Y6KL 2Z3QA 4OAAA 4J4LC 4A93D 3HMXB 4W6VA 2OQPA 3N06A 2R93D 3NCBA 4GS7A 4MHLA 2C35A 4XNJA 3SE4B 3WDOA 1F45B 4JA3A 1BP3A 4PS4A 4YQXA 1B5LA 3PIVA 1N1FA 4YB9D 1PVHB 5FHXA 4TPGA 3HOXD 5IYBD 4GC0A 4DKFA 1IRLA 2B91A 4YBQA 5EQGA 3B5KA 3TGXB 3LB6B 3NCEA 4DKCA 4A3MD 5A2NA 5D59A 4X51A 4A3FD 4TPHA 1AXIA 1RHGA 2CFPA 4A3LD 2O26A 1FG9A 4ZS7A 3EW3A 2Z3RA 4A3CD 4A3ED 1EVSA 2B8UA 4D2CA 4GRWA 1IL6A 3UX9A 3G6DA 2Y5YA 4A3DD 1PV6A 2H24A 1HIKA 1Y6ML 5C4XD 3HOZD 4JR9A 1M4AA 1D9CA 4IU9A 4BY7D 3FKID 5C44D 2L3OA 4RS1A 2B8ZA 5C3ED 1Z92A 1LKIA 4OH3A 3OG6A 2O27A 1M47A 1I1RB 3HOWD 4APSA 4ZWBA 5D71A 1HGUA 5KNHI 3NPZA 3BPOA 5C7XA 4LRLA 3IRHA 4NN6A 2JA7D 3DLQI 4YUEC 4BBRD 3N0PA 1M49A 1M4RA 4NI9A 3H3VE 3NCCA 1EERA 4IKYA 4IKVA 4Z5RD 1EMRA 4ZW9A 4O9HA 3HOVD 4U4VA 1EXZA 5IP9D 1PGRA 4NEMA 1ITFA 1LK3A 5IYCD 3I4ND 3HHCA 4XNIA 2Q7NB 2JA6D 2JA8D 2L3YA 5L6YC 5E4EA 1PY2A 3HOUD 4UVMA 5D6KA 4PYPA 4A3ID 4DOHA 5EQIA 4BY1D 1V7MV 3EJJA 3BPLA 3L5WI 5D72A 1RFBA 2B8YA 5LQBA 1Y6NL 4ZWCA 3L5XA
chains in the Genus database with same CATH topology
5IP7D 2JA5D 4DKEA 4CNIC 1GA3A 1Y6ML 1Y14A 1BBNA 3INKC 1Y1WD 5C4XD 1ITMA 3HOZD 3MZGA 1M4AA 1GNCA 4A3GD 1A22A 3D87A 3DGCL 3H0GD 1D9CA 1A7MA 2LMSA 4O6KA 1IK0A 1Y6KL 2Z3QA 4BY7D 3FKID 2Q14A 3D48P 4J4LC 3QB7A 4A93D 2B5IA 1ETEA 5C44D 2L3OA 4RS1A 2B8ZA 3PO2D 5C3ED 1Z92A 5D70A 3D85C 1LKIA 2D9QA 2O6IA 3BPNA 2CYKA 3HHRA 3HMXB 3OG6A 1ALUA 1HWGA 2O27A 1M47A 1FYHA 1HWHA 1LQSL 1I1RB 1F6FA 1CN4C 4I77Z 3HOYD 2R7ZD 2ILKA 1ITIA 1ILKA 3HOWD 4BXXD 2HYMB 2OQPA 3NCFA 4A3KD 1AU1A 5D71A 3N06A 1HGUA 3DI3A 4BBSD 2R93D 5KNHI 1HIJA 3DUHC 3NCBA 4GS7A 5C7XA 1NBPA 1BGCA 1IJZA 3NPZA 4MHLA 2C35A 4NI7A 3PIWA 3SE4B 2D48A 3BPOA 4LRLA 1EKUA 1WU3I 2Q98A 3IRHA 1V7NV 4NN6A 4EXPA 2PSMA 4YDYI 2JA7D 3QB1A 3DLQI 5TS9A 4YUEC 1BCNA 1F45B 4BBRD 1BUYA 1QVNA 1BP3A 4FA8E 3N0PA 4PS4A 2GMFA 3SE3B 4YQXA 1B5LA 3G9VB 4DKDA 1M4BA 1M49A 1RW5A 3LB6A 3OQ3A 3PIVA 1HULA 1M4RA 4NI9A 3QT2C 4ZF7A 3I4MD 4EXNA 1N1FA 2E9WC 1CD9A 3H3VE 1PVHB 1SCFA 2B63D 3NCCA 1EERA 1HZIA 5FHXA 1J7VL 3VA2A 3HOXD 1CSGA 3S9DA 1YKBA 5IYBD 4Z5RD 1EMRA 2INTA 3Q1SI 4DKFA 3OG4A 1M4CA 5D28B 1Z7CA 1IRLA 1IARA 2B91A 4O9HA 3HOVD 4NKQC 1ITLA 1EXZA 3B5KA 3TGXB 3LB6B 5IP9D 1PGRA 3NCEA 4NN7A 3UF2A 4DKCA 1D9GA 4A3MD 1AX8A 1CYLA 4NEMA 1ITFA 1LK3A 5IYCD 3I4ND 3PO3D 3HHCA 4WRLB 4X51A 2XQBA 3UF5A 3WCYI 2Q7NB 1M48A 4A3FD 2JA6D 2KZ1A 2JA8D 2L3YA 1WCMD 5L6YC 1AXIA 2B90A 5FUCA 2VUMD 1KF9A 1RHGA 1RCBA 3UEZE 4A3BD 5E4EA 1Y1VD 1PW6A 4A3LD 5IYDD 2O26A 1FG9A 2B8XA 3BESL 4ZS7A 3EW3A 1PY2A 2Z3RA 4NEJA 3HOUD 1INRA 1VLKA 4A3CD 5FLMD 1JLIA 4NN5A 1HUWA 1BGDA 4A3ID 2ERJD 4A3ED 4DOHA 1EVSA 2B8UA 4GRWA 1IL6A 4BY1D 1V7MV 3EJJA 4YPGC 3BPLA 3UX9A 3L5WI 3G6DA 5D22A 5D72A 4A3DD 2IL6A 1RFBA 1CNT1 2H24A 3QAZA 2B8YA 4A3JD 5LQBA 1HIKA 3DI2A 3QWRB 1Y6NL 2R92D 1P9MB 2LAGA 3AYHA 1BGEA 3L5XA
chains in the Genus database with same CATH homology


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