3I4MD

8-oxoguanine containing rna polymerase ii elongation complex d
Total Genus 45
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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
45
sequence length
221
structure length
187
Chain Sequence
MNVSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKDDFMHSETREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY
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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,transferase/dna-rna hybrid
molecule keywords DNA-directed RNA polymerase II subunit RPB1
publication title Molecular basis of transcriptional mutagenesis at 8-oxoguanine
pubmed doi rcsb
total genus 45
structure length 187
sequence length 221
ec nomenclature
pdb deposition date 2009-07-02

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; 3i4mD02
2JA6D 4A3BD 4BXXD 3FKID 4BY1D 3H3VE 3I4ND 1Y14A 3I4MD 2VUMD 1Y1VD 4BBSD 2R93D 3HOUD 4A3KD 5FLMD 2JA8D 3H0GD 5IYDD 4A3JD 4A3LD 5IYBD 2R92D 1Y1WD 3HOWD 4BY7D 4A3ED 3HOVD 2B63D 5IP9D 2C35A 3AYHA 1WCMD 4A3FD 2JA7D 5C44D 2R7ZD 2JA5D 4A3DD 3PO3D 3HOZD 4A3ID 4A93D 4A3CD 5C3ED 4A3MD 4A3GD 3PO2D 5C4XD 5IYCD 3HOXD 3HOYD 4BBRD 5IP7D
chains in the Genus database with same CATH superfamily
5D6KA 4BXXD 1Y14A 3I4MD 5KNHI 4GC0A 4O9HA 3PIWA 4LRLA 1FG9A 1CYLA 1AXIA 2Q98A 5IP9D 2R7ZD 4IU9A 5C44D 4ZYRA 2B8XA 1PW4A 4CNIC 1EMRA 3HOZD 1A7MA 4YBQA 5EQIA 4IKWA 4NI9A 1A22A 1HIJA 4YQXA 1J7VL 4LEPA 1ITFA 4NEMA 2R93D 2B5IA 5TS9A 4PYPA 1IARA 1M4AA 4NN7A 1PGRA 5D58A 1IL6A 4A3ID 4O6KA 4A3MD 5C4XD 4GRWA 2HYMB 1Y6NL 4Z5RD 2JA8D 3QAZA 4D2DA 3UF2A 2LMSA 3BESL 1LK3A 1KF9A 2B8ZA 1PVHB 3BPOA 4DKEA 5LQBA 1F6FA 4BBRD 2Q14A 4A3BD 2IL6A 1INRA 1BCNA 3DUHC 3NCFA 3B5KA 4YDYI 1NBPA 1RHGA 2Z3RA 1RW5A 3NPZA 1BGDA 2CYKA 4JREA 4NN6A 2B91A 2LAGA 5D28B 3OG6A 1EERA 1HGUA 3FKID 1PV7A 3WDOA 4DKFA 4GBZA 3LB6B 1CD9A 3L5XA 4MHLA 1IJZA 1JLIA 1WCMD 4A3DD 4JA3A 3Q1SI 4NN5A 4NKQC 5L6YC 1BGCA 3N06A 3SE3B 1ETEA 1HIKA 3BPLA 4U4TA 4OH3A 4YPGC 2INTA 1D9GA 4DKCA 1LKIA 3L5WI 3S9DA 3G6DA 5C65A 4A93D 3MZGA 2H24A 3NCBA 4BY1D 1ITIA 5A2NA 3DI3A 2GMFA 1PW6A 1GNCA 3EJJA 3QB1A 3UX9A 2JA5D 1D9CA 3O7PA 3WCYI 3PIVA 2ERJD 5D59A 3EW3A 2Y5YA 1Z7CA 5IP7D 4D2BA 4WRLB 2Z3QA 1Y6ML 4TPGA 1IK0A 4YUEC 4TPHA 1F45B 1PY2A 1HZIA 2PSMA 3OG4A 1EKUA 4ZWCA 4NI7A 4PS4A 3UEZE 4ZWBA 5FLMD 2B90A 2B8UA 1Y6KL 1RFBA 4QIQA 5C7XA 2E9WC 4TPJA 3HOYD 4YB9D 1V7MV 3H0GD 4ZW9A 4UVMA 3AYHA 2JA7D 5D71A 5GXBA 1QVNA 3PO3D 3IRHA 3N0PA 4JR9A 1HUWA 5C3ED 1FYHA 2CFPA 4D2CA 3PO2D 2O27A 2JA6D 4APSA 3H3VE 3TGXB 4IKXA 4ZF7A 4ZS7A 4XNJA 4BBSD 5IYDD 3D87A 3HOWD 1M4BA 5EQGA 4DKDA 4A3ED 3HOVD 2B63D 4Q65A 4IKYA 5E4EA 4A3FD 3DLQI 2L3OA 3BPNA 2CFQA 5IYCD 2V8NA 4IU8A 3D48P 3I4ND 1AX8A 1P9MB 5FUCA 4GBYA 3VA2A 4GS7A 1EVSA 3G9VB 1M48A 3QB7A 4X51A 4I77Z 4EXPA 4U4WA 5EQHA 5D22A 2L3YA 4XNIA 1I1RB 4IKVA 1SCFA 3HMXB 5D72A 1YKBA 2VUMD 1GA3A 1BGEA 4J4LC 1V7NV 4U4VA 3HHRA 3D85C 4NEJA 2C35A 4W6VA 4J05A 1VLKA 1PV6A 4A3GD 3O7QA 3HOXD 1HWHA 4FA8E 1Y1VD 2D9QA 4A3KD 2R92D 1Y1WD 3UF5A 1CNT1 5FHXA 4BY7D 2Q7NB 1BP3A 1Z92A 1AU1A 1IRLA 2O26A 4A3CD 1ITLA 2O6IA 3QWRB 3NCCA 5D70A 2B8YA 1BUYA 2OQPA 3DI2A 3OQ3A 4A3LD 1ALUA 3INKC 1CN4C 1M47A 2XQBA 4EXNA 1M4CA 4RS1A 1HULA 1N1FA 3NCEA 1EXZA 4DOHA 4LDSA 3HHCA 1CSGA 5A2OA 1HWGA 2XUTA 4OAAA 1B5LA 2ILKA 2KZ1A 3HOUD 1RCBA 1BBNA 1ILKA 4A3JD 3LB6A 5IYBD 1M49A 1ITMA 1LQSL 3SE4B 2D48A 3QT2C 3DGCL 4IKZA 1M4RA 1WU3I
chains in the Genus database with same CATH topology
1I1RB 4BXXD 3FKID 4NI7A 1Y14A 1SCFA 4DKFA 3HMXB 5D72A 3I4MD 1YKBA 4PS4A 3LB6B 2VUMD 1BGEA 1CD9A 3UEZE 3L5XA 1GA3A 5KNHI 5FLMD 4O9HA 4MHLA 2B90A 3PIWA 4J4LC 1FG9A 1V7NV 2B8UA 1AXIA 1Y6KL 2Q98A 3HHRA 4LRLA 1CYLA 1IJZA 1JLIA 1RFBA 3D85C 4NEJA 5IP9D 2C35A 2R7ZD 1WCMD 4A3DD 5C44D 2B8XA 1VLKA 5C7XA 4CNIC 1EMRA 3HOZD 1A7MA 2E9WC 3Q1SI 4NN5A 4NI9A 4A3GD 1A22A 1HIJA 4YQXA 3HOXD 4NKQC 3HOYD 1HWHA 1J7VL 5L6YC 1BGCA 1ITFA 3N06A 3SE3B 4NEMA 2JA5D 4FA8E 1Y1VD 2D9QA 2R93D 1ETEA 3UX9A 4A3KD 1HIKA 3BPLA 1V7MV 3H0GD 5D22A 2B5IA 2R92D 5TS9A 1Y1WD 4YPGC 3UF5A 1CNT1 5FHXA 4BY7D 2INTA 1D9GA 1IARA 2Q7NB 1BP3A 1Z92A 1M4AA 3AYHA 2JA7D 5D71A 1AU1A 4NN7A 1LKIA 4DKCA 3L5WI 3S9DA 1QVNA 1PGRA 3PO3D 1IL6A 4A3ID 3IRHA 1IRLA 3G6DA 3N0PA 2O26A 4A93D 4A3CD 4O6KA 5C3ED 1HUWA 4A3MD 1ITLA 1FYHA 3MZGA 2O6IA 3PO2D 2H24A 3QWRB 5C4XD 4GRWA 3NCCA 2O27A 3NCBA 5D70A 2JA6D 2B8YA 4BY1D 3H3VE 1BUYA 3TGXB 4ZF7A 4ZS7A 2OQPA 1ITIA 2HYMB 1Y6NL 4Z5RD 4BBSD 3DI3A 2GMFA 3DI2A 2JA8D 3QAZA 1PW6A 5IYDD 3OQ3A 4A3LD 1ALUA 3D87A 3HOWD 1GNCA 1M4BA 3EJJA 3INKC 4DKDA 4A3ED 1CN4C 3HOVD 3QB1A 3UF2A 1M47A 2B63D 2LMSA 5E4EA 4A3FD 3BESL 1D9CA 1LK3A 2L3OA 1M4CA 2XQBA 1KF9A 3DLQI 3PIVA 4RS1A 3WCYI 4EXNA 3BPNA 1HULA 1N1FA 2B8ZA 1PVHB 3NCEA 3BPOA 4DKEA 2ERJD 3EW3A 1EXZA 4DOHA 5LQBA 5IYCD 3HHCA 1F6FA 4BBRD 1Z7CA 2Q14A 5IP7D 4A3BD 4WRLB 2IL6A 1CSGA 2Z3QA 1Y6ML 1INRA 3D48P 1HWGA 3I4ND 1AX8A 1BCNA 3DUHC 1B5LA 3NCFA 2ILKA 1P9MB 2KZ1A 5FUCA 1IK0A 3B5KA 3HOUD 1RCBA 1BBNA 4YUEC 4YDYI 1ILKA 1NBPA 3LB6A 4A3JD 3VA2A 5IYBD 1RHGA 1F45B 1PY2A 2Z3RA 1M49A 1RW5A 1HZIA 1ITMA 4GS7A 1EVSA 1LQSL 3G9VB 1M48A 3QB7A 4X51A 3NPZA 3SE4B 2PSMA 1BGDA 2CYKA 2D48A 3OG4A 3QT2C 4NN6A 2B91A 2LAGA 3DGCL 4I77Z 1M4RA 1EKUA 4EXPA 5D28B 3OG6A 1WU3I 1EERA 1HGUA 2L3YA
chains in the Genus database with same CATH homology


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