2JA7D

Cpd lesion containing rna polymerase ii elongation complex c
Total Genus 38
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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
38
sequence length
218
structure length
177
Chain Sequence
b'STSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY'
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 keywords 5'-D(*TP*AP*AP*GP*TP*AP*CP*TP*TP*GP *AP*GP*CP*T)-3'
publication title Cpd Damage Recognition by Transcribing RNA Polymerase II.
pubmed doi rcsb
molecule tags Transferase
total genus 38
structure length 177
sequence length 218
chains with identical sequence P
ec nomenclature
pdb deposition date 2006-11-23

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; 2ja7D02
3H3VE 3HOUD 2B63D 5FLMD 4A3FD 5IP7D 3H0GD 1WCMD 4A3ID 3PO2D 3HOVD 4BXXD 5C4XD 4A3GD 5C44D 4BBRD 2R92D 5IP9D 5IYCD 4A3JD 4BY7D 4A3MD 2R93D 3FKID 4A3LD 3HOZD 4A3ED 5IYDD 4A3KD 4A3CD 3AYHA 4A93D 1Y1WD 1Y1VD 1Y14A 3HOYD 4A3DD 3HOWD 4BBSD 3PO3D 2R7ZD 2JA8D 5IYBD 4BY1D 5C3ED 3I4MD 3HOXD 2JA7D 2JA6D 2VUMD 3I4ND 2JA5D 4A3BD 2C35A
chains in the Genus database with same CATH superfamily
4A3ID 4OH3A 5C4XD 3PIVA 3L5WI 1HIJA 4IKYA 1ITIA 5GXBA 3N06A 4NEJA 4NN5A 3NCCA 2D9QA 4I77Z 4ZW9A 2B90A 3PO2D 3B5KA 3HOVD 4BXXD 1RW5A 2V8NA 4YB9D 4JA3A 1IK0A 4LEPA 4GBYA 1SCFA 1LQSL 3D48P 3HOZD 4A3CD 4NI9A 1Y1WD 1M4RA 4GRWA 2R7ZD 4YUEC 1WU3I 4ZWCA 3VA2A 1RCBA 2JA6D 2B91A 4A3BD 2H24A 1Y6NL 4D2DA 5A2OA 4GBZA 1AU1A 1HIKA 4IU9A 1VLKA 2O6IA 3BESL 3OG4A 3HOXD 3DI3A 1NBPA 4DKEA 3TGXB 2OQPA 2B8ZA 3QB1A 2O26A 2Z3RA 3OG6A 2D48A 5D70A 5IP9D 5IYCD 5EQGA 4PS4A 1BCNA 3LB6B 2ILKA 4WRLB 1AXIA 1ITLA 1PY2A 2XUTA 2KZ1A 4J05A 3INKC 1D9CA 4YBQA 4OAAA 1ETEA 1B5LA 3BPLA 1M4AA 2Q98A 1Z7CA 5C7XA 3HHCA 4A3ED 1PW6A 1JLIA 1IARA 2LAGA 3G6DA 5KNHI 4U4VA 1ITMA 1FG9A 4DKFA 2JA7D 2ERJD 2VUMD 1BUYA 4O6KA 3EJJA 3BPNA 4XNIA 3WCYI 5TS9A 1CD9A 2Y5YA 1EERA 4A3MD 1ITFA 4EXNA 3IRHA 1PV6A 3AYHA 3HOWD 3PO3D 3LB6A 4TPHA 4APSA 1IRLA 4NEMA 1EVSA 4IU8A 4DOHA 1YKBA 5D71A 1I1RB 4ZS7A 5D58A 1M47A 3DUHC 4JREA 2XQBA 1HWHA 3HOYD 2CFQA 4W6VA 5C3ED 3UX9A 5A2NA 3H3VE 1ILKA 4A3FD 3EW3A 1WCMD 2PSMA 3QWRB 1IL6A 1GNCA 3SE4B 3O7QA 3QT2C 4DKCA 1PGRA 1KF9A 5LQBA 5D6KA 2B8YA 4Z5RD 1LKIA 4J4LC 2B8UA 3N0PA 3I4MD 3NPZA 5E4EA 1EMRA 2E9WC 4TPGA 1RHGA 4JR9A 1A7MA 1N1FA 4BY7D 4D2BA 2L3OA 5D22A 2HYMB 4GS7A 1Y1VD 3HHRA 4ZF7A 1CYLA 1LK3A 2C35A 4IKWA 4NI7A 1V7MV 3BPOA 2IL6A 1M48A 5D28B 1PW4A 4NKQC 4LRLA 4LDSA 5D72A 4Q65A 4QIQA 4NN7A 3S9DA 1HULA 5IYBD 5EQIA 1BGCA 3DI2A 1HUWA 3QB7A 1HGUA 2L3YA 1EXZA 4UVMA 4A3GD 1A22A 4IKXA 4BBRD 3UEZE 4A3LD 4O9HA 5C65A 5IYDD 1HZIA 1V7NV 1CN4C 2Z3QA 1Y6ML 5FUCA 5EQHA 1D9GA 1GA3A 3QAZA 4FA8E 2CYKA 5FLMD 1F6FA 3MZGA 4MHLA 3NCFA 2Q14A 4ZWBA 2CFPA 4GC0A 4IKVA 4RS1A 5D59A 1BGDA 4BY1D 3L5XA 5FHXA 1Y6KL 2LMSA 3HOUD 3Q1SI 4U4TA 1QVNA 3D87A 1BP3A 1IJZA 2B5IA 5C44D 3OQ3A 4X51A 1J7VL 4DKDA 2Q7NB 3NCBA 3D85C 3DLQI 3G9VB 1AX8A 4NN6A 3UF5A 4EXPA 3H0GD 1BGEA 4PYPA 1HWGA 5L6YC 1ALUA 3HMXB 2R93D 3DGCL 2INTA 1PVHB 1P9MB 1M4BA 3SE3B 3O7PA 1Z92A 4U4WA 3I4ND 3PIWA 2B63D 5IP7D 4TPJA 4CNIC 1M4CA 1CSGA 4IKZA 3NCEA 4D2CA 4A3JD 1RFBA 3FKID 1BBNA 4A3KD 1FYHA 3UF2A 1Y14A 4ZYRA 4A3DD 1CNT1 4YPGC 2JA5D 2R92D 1INRA 2GMFA 1PV7A 1M49A 1F45B 1EKUA 4YQXA 2O27A 4A93D 3WDOA 4BBSD 4YDYI 2B8XA 4XNJA 2JA8D
chains in the Genus database with same CATH topology
1EMRA 2LMSA 2KZ1A 3HOUD 2E9WC 3Q1SI 3INKC 1D9CA 1RHGA 4A3ID 1QVNA 3D87A 1A7MA 1ETEA 5C4XD 1BP3A 1B5LA 1IJZA 3BPLA 1M4AA 2Q98A 1N1FA 2B5IA 5FHXA 5C44D 4BY7D 1Z7CA 5C7XA 3HHCA 2L3OA 3OQ3A 5D22A 3PIVA 2HYMB 4X51A 1J7VL 4GS7A 4A3ED 3L5WI 1PW6A 1JLIA 1HIJA 1IARA 2LAGA 3G6DA 1Y1VD 2Q7NB 4DKDA 5KNHI 3HHRA 1ITMA 3NCBA 1ITIA 3N06A 4ZF7A 1FG9A 3D85C 3DLQI 4DKFA 2JA7D 2ERJD 2VUMD 4NEJA 1CYLA 4NN5A 1BUYA 1LK3A 2C35A 1AX8A 2D9QA 3G9VB 3NCCA 4NN6A 4O6KA 4NI7A 4I77Z 3UF5A 3EJJA 4EXPA 3BPNA 1V7MV 3BPOA 3WCYI 3H0GD 1BGEA 2B90A 1HWGA 1M48A 2IL6A 3B5KA 5D28B 3HOVD 1RW5A 5TS9A 5L6YC 4BXXD 4NKQC 1ALUA 1IK0A 1CD9A 4LRLA 1EERA 1SCFA 5D72A 4A3MD 1ITFA 4EXNA 1LQSL 3HMXB 2R93D 3D48P 3IRHA 3DGCL 2INTA 1PVHB 1P9MB 3HOZD 1M4BA 4A3CD 3AYHA 4NI9A 1Y1WD 4NN7A 1M4RA 3SE3B 3HOWD 4GRWA 3PO3D 2R7ZD 4YUEC 3S9DA 3LB6A 1HULA 5IYBD 1WU3I 3VA2A 1Z92A 1RCBA 2JA6D 2B91A 1BGCA 3I4ND 3DI2A 1IRLA 1HUWA 4A3BD 3PIWA 2H24A 4NEMA 1EVSA 2B63D 3QB7A 1Y6NL 5IP7D 1HGUA 4CNIC 1M4CA 3PO2D 1CSGA 1EXZA 2L3YA 4A3GD 4DOHA 1YKBA 1A22A 3NCEA 5D71A 4BBRD 4A3JD 1I1RB 4ZS7A 1RFBA 1AU1A 3UEZE 1HIKA 1M47A 3FKID 4A3LD 1VLKA 1BBNA 3DUHC 4O9HA 2XQBA 5IYDD 4A3KD 1FYHA 1HZIA 1V7NV 3UF2A 1HWHA 1Y14A 3HOYD 4A3DD 2O6IA 1CN4C 1CNT1 2Z3QA 4YPGC 5C3ED 1Y6ML 3UX9A 3BESL 3OG4A 5FUCA 3HOXD 3DI3A 1D9GA 1NBPA 1GA3A 3QAZA 4FA8E 2JA5D 2CYKA 2R92D 1INRA 4DKEA 3H3VE 2GMFA 1ILKA 5FLMD 1F6FA 3EW3A 3TGXB 4A3FD 3MZGA 1WCMD 2OQPA 4MHLA 2PSMA 2B8ZA 3QWRB 1M49A 1IL6A 3QB1A 2O26A 2Q14A 3NCFA 1F45B 2Z3RA 3OG6A 1GNCA 3SE4B 2D48A 5D70A 5IP9D 1EKUA 3QT2C 5IYCD 4DKCA 4PS4A 4YQXA 2O27A 1BCNA 1PGRA 1KF9A 5LQBA 3LB6B 4A93D 4BBSD 4YDYI 2B8XA 2B8YA 4RS1A 4Z5RD 1LKIA 2ILKA 1AXIA 4J4LC 4WRLB 2B8UA 1BGDA 1ITLA 3N0PA 1PY2A 3NPZA 4BY1D 3I4MD 5E4EA 2JA8D 3L5XA 1Y6KL
chains in the Genus database with same CATH homology


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