4BXXD

Arrested rna polymerase ii-bye1 complex
Total Genus 51
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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
51
sequence length
218
structure length
177
Chain Sequence
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 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 51
structure length 177
sequence length 218
ec nomenclature
pdb deposition date 2013-07-16

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; 4bxxD02
3H3VE 2VUMD 3I4MD 4A3ID 3HOVD 2JA6D 4A93D 5IYCD 4A3BD 2JA5D 1Y1WD 5IYDD 2R7ZD 1Y1VD 3AYHA 4A3LD 3FKID 5IP9D 5C4XD 4A3FD 3H0GD 3HOZD 2JA7D 3HOWD 5C44D 5IYBD 4A3KD 4A3GD 2C35A 3HOXD 4BBRD 4A3CD 1WCMD 4A3ED 3HOYD 5IP7D 2B63D 4BY7D 4BXXD 4BBSD 5FLMD 4BY1D 2JA8D 5C3ED 2R92D 3HOUD 3PO2D 4A3JD 4A3DD 3PO3D 4A3MD 3I4ND 2R93D 1Y14A
chains in the Genus database with same CATH superfamily
3BESL 2JA6D 1Y1WD 4D2DA 1BGCA 4RS1A 3H0GD 1M4AA 4TPJA 3NCEA 3O7PA 4GBZA 1LK3A 5FLMD 4NN5A 1HULA 1BGDA 4A3MD 1PY2A 1M47A 3BPLA 1BP3A 4XNIA 3D87A 4YDYI 1RHGA 5LQBA 4A3KD 3QWRB 1PVHB 4A3CD 1LKIA 2ILKA 4UVMA 2R93D 5GXBA 3H3VE 5A2OA 2O27A 4A93D 5TS9A 3S9DA 1GNCA 3G6DA 3OG4A 3HOWD 4BBRD 2B8YA 4IKXA 1P9MB 1ALUA 3Q1SI 1BBNA 3MZGA 1Y14A 2B8XA 4ZW9A 4ZYRA 2OQPA 4OH3A 5D6KA 4Q65A 3DI2A 5IYCD 3QT2C 2PSMA 5L6YC 5D28B 1NBPA 3DI3A 3SE3B 2XUTA 2JA8D 4BBSD 1RW5A 4DKDA 1D9CA 4W6VA 4EXNA 1RFBA 3HMXB 1J7VL 3VA2A 4IKVA 1EERA 1PV6A 3L5XA 4U4WA 1HGUA 4IU8A 1ITLA 1I1RB 3WCYI 4NI7A 2L3OA 5FHXA 4EXPA 4NN6A 4MHLA 1V7NV 4YUEC 3BPOA 1INRA 1IRLA 4A3JD 5D70A 3UEZE 2D48A 1B5LA 1YKBA 3DLQI 4CNIC 4NEJA 1FG9A 4YBQA 4FA8E 3O7QA 4A3LD 5C4XD 3HOXD 1N1FA 3UX9A 3BPNA 2Q98A 3PO3D 3EW3A 5D22A 2INTA 1CD9A 1SCFA 4A3BD 3IRHA 3AYHA 4DOHA 3FKID 5KNHI 1D9GA 4U4TA 5C7XA 1PW6A 4PS4A 4TPGA 5IYBD 1FYHA 1LQSL 3HHCA 4BXXD 1HIKA 3L5WI 5D71A 1CNT1 3HHRA 2R92D 1AX8A 2O26A 5C65A 4YQXA 2KZ1A 5IYDD 3INKC 5D72A 1PV7A 3DGCL 1A7MA 4J4LC 1PGRA 4LEPA 1CYLA 3LB6B 4LDSA 1Y6NL 3PO2D 1IK0A 1M4CA 4J05A 1IARA 1M49A 4IKWA 2LAGA 2B91A 3HOVD 2H24A 2Q14A 1EMRA 4QIQA 4APSA 1EKUA 5C44D 1PW4A 1BGEA 4NKQC 4NN7A 5EQHA 5IP7D 4YPGC 3G9VB 3DUHC 3UF5A 3I4ND 1CSGA 4XNJA 2JA5D 1JLIA 3WDOA 1QVNA 4JR9A 4A3FD 3NCFA 1IL6A 1RCBA 2B63D 1IJZA 4IU9A 1BCNA 2O6IA 1EXZA 2ERJD 4DKEA 1ITIA 1VLKA 4U4VA 4X51A 4O9HA 1ILKA 2B5IA 5E4EA 3HOZD 1F6FA 4A3GD 1Y6ML 4TPHA 1M4RA 3N0PA 3SE4B 4BY7D 1HZIA 4ZS7A 1GA3A 4NEMA 2Y5YA 4GC0A 2XQBA 1ITMA 3B5KA 3QB7A 4D2BA 2L3YA 5D58A 4D2CA 1CN4C 4NI9A 4WRLB 3LB6A 5EQIA 1BUYA 2JA7D 1HIJA 4JREA 1WCMD 2E9WC 4GBYA 2D9QA 4IKZA 1EVSA 3UF2A 2CYKA 2CFPA 1HUWA 4A3ID 1Y6KL 1M4BA 4OAAA 3NCCA 4LRLA 3TGXB 3QAZA 2CFQA 1HWGA 4ZWBA 4GS7A 3PIWA 3NCBA 2B8ZA 2B8UA 2R7ZD 4GRWA 3EJJA 5D59A 1AU1A 4JA3A 2LMSA 3N06A 2C35A 5EQGA 3QB1A 2IL6A 4Z5RD 4I77Z 2V8NA 4ZWCA 1F45B 1AXIA 1HWHA 4A3DD 4DKFA 4PYPA 1Y1VD 5IP9D 4O6KA 4DKCA 3PIVA 1ETEA 3D85C 2B90A 1Z7CA 4BY1D 1A22A 4ZF7A 5C3ED 1Z92A 2Q7NB 1WU3I 2HYMB 2VUMD 3I4MD 4IKYA 2GMFA 2Z3RA 1V7MV 2Z3QA 5FUCA 3NPZA 3OQ3A 3D48P 4YB9D 1ITFA 3HOYD 4A3ED 1KF9A 3OG6A 5A2NA 3HOUD 1M48A
chains in the Genus database with same CATH topology
1D9CA 4EXNA 3BESL 1RFBA 2CYKA 3HMXB 1J7VL 2LAGA 1HUWA 3VA2A 4A3ID 1Y6KL 2B91A 3HOVD 1M4BA 2JA6D 2H24A 1Y1WD 1EERA 2Q14A 3L5XA 1BGCA 3NCCA 1HGUA 4LRLA 1EMRA 4RS1A 1ITLA 1I1RB 1M4AA 3H0GD 3TGXB 3WCYI 4NI7A 2L3OA 1EKUA 5FHXA 4BY7D 3QAZA 5C44D 3NCEA 4EXPA 5KNHI 4NN6A 1BGEA 4MHLA 1V7NV 4NKQC 4NN7A 4YUEC 5IP7D 4YPGC 1LK3A 5FLMD 1HWGA 4NN5A 3G9VB 1HULA 3BPOA 4GS7A 1INRA 3DUHC 1IRLA 1BGDA 4A3JD 3PIWA 5D70A 3UEZE 3UF5A 4A3MD 2D48A 3I4ND 3NCBA 1PY2A 1B5LA 1YKBA 1M47A 2B8ZA 2B8UA 3DLQI 3BPLA 4CNIC 4NEJA 1BP3A 1FG9A 4FA8E 1CSGA 2JA5D 2R7ZD 4GRWA 1JLIA 3EJJA 4A3LD 3D87A 4YDYI 1AU1A 1QVNA 1RHGA 5C4XD 5LQBA 4A3FD 2LMSA 3N06A 3NCFA 2D9QA 4A3KD 3QWRB 2C35A 1IL6A 3HOXD 3QB1A 2IL6A 1RCBA 1PVHB 4A3CD 4Z5RD 1LKIA 1N1FA 2ILKA 4I77Z 3UX9A 2B63D 1IJZA 3BPNA 1F45B 1EVSA 4BXXD 1AXIA 1HWHA 2Q98A 4A3DD 3PO3D 3EW3A 2R93D 1BCNA 5D22A 2INTA 4DKFA 3H3VE 2O6IA 1EXZA 2O27A 1CD9A 2ERJD 4DKEA 1SCFA 4A93D 4A3BD 1ITIA 3IRHA 1VLKA 5TS9A 3S9DA 1Y1VD 3AYHA 4X51A 1GA3A 1GNCA 4DOHA 3FKID 5IP9D 3G6DA 1D9GA 3OG4A 4O6KA 4O9HA 4DKCA 1ILKA 5C7XA 3PIVA 2B5IA 1PW6A 5E4EA 3HOZD 4PS4A 3HOWD 1ETEA 1F6FA 5IYBD 4A3GD 3D85C 4BBRD 1FYHA 1LQSL 2B8YA 2B90A 1Y6ML 1Z7CA 1M4RA 3HHCA 3N0PA 1HIKA 3L5WI 5D71A 3SE4B 1HZIA 4ZS7A 4BY1D 1A22A 1P9MB 1CNT1 4ZF7A 1ALUA 3HHRA 3Q1SI 1BBNA 1Z92A 4NEMA 3UF2A 5C3ED 2R92D 3MZGA 1AX8A 2O26A 1Y14A 2Q7NB 2B8XA 1WU3I 2HYMB 2OQPA 2VUMD 3I4MD 4YQXA 2XQBA 1ITMA 2KZ1A 3B5KA 3DI2A 3QB7A 5IYCD 3QT2C 2GMFA 2L3YA 5IYDD 2Z3RA 1V7MV 2PSMA 2Z3QA 3INKC 1CN4C 5D72A 5L6YC 4NI9A 4WRLB 3DGCL 5FUCA 1M4CA 3LB6A 5D28B 1BUYA 4J4LC 1A7MA 2JA7D 1PGRA 3NPZA 3OQ3A 1NBPA 3D48P 1HIJA 1ITFA 3DI3A 3SE3B 1CYLA 1WCMD 4A3ED 1KF9A 3HOYD 3OG6A 2E9WC 2JA8D 4BBSD 3LB6B 3HOUD 1Y6NL 3PO2D 1IK0A 1RW5A 1M48A 1IARA 4DKDA 1M49A
chains in the Genus database with same CATH homology


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