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


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