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


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