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


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