3PO2D

Arrested rna polymerase ii elongation complex
Total Genus 61
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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
61
sequence length
221
structure length
180
Chain Sequence
b'MNVSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY'
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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 keywords DNA-directed RNA polymerase II subunit RPB1
publication title Structural basis of RNA polymerase II backtracking, arrest and reactivation.
pubmed doi rcsb
molecule tags Transferase/dna/rna
total genus 61
structure length 180
sequence length 221
ec nomenclature
pdb deposition date 2010-11-21

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; 3po2D02
3HOWD 3HOYD 5IYCD 4BBSD 4A3BD 4A3ID 2JA8D 2R92D 3H3VE 2R7ZD 5IYDD 4BY7D 5C44D 1Y1WD 3H0GD 2C35A 4BBRD 4A3MD 5IP9D 4A3JD 3HOUD 4BY1D 4A93D 2JA5D 3PO2D 4A3LD 5FLMD 3PO3D 2JA6D 4A3CD 3HOZD 3I4MD 3HOVD 4A3ED 2B63D 5C4XD 4A3KD 4A3GD 2R93D 3HOXD 5IP7D 2JA7D 1Y14A 1Y1VD 4A3DD 3AYHA 4BXXD 3I4ND 2VUMD 3FKID 1WCMD 5C3ED 4A3FD 5IYBD
chains in the Genus database with same CATH superfamily
4YPGC 3HOWD 2B8ZA 4IU9A 1ETEA 1PY2A 4BY7D 2CFPA 4ZF7A 3OG6A 4ZW9A 4MHLA 2XQBA 5C65A 4Q65A 3L5XA 2O26A 5L6YC 3I4MD 4TPJA 1BGCA 2B90A 2INTA 1Z92A 5D6KA 4XNIA 1ALUA 1RW5A 2JA5D 4A3BD 4GBYA 1HWGA 2LAGA 5IP9D 4ZYRA 5EQHA 5D72A 4A3GD 1M4CA 1CN4C 3QB7A 3I4ND 2CFQA 1Y6NL 2L3OA 5D70A 4OAAA 3PO3D 4ZWCA 4Z5RD 3NCEA 1ITFA 4QIQA 4U4TA 1Y1WD 5D59A 4U4WA 1ITIA 3WCYI 3IRHA 2CYKA 3D48P 4GRWA 3TGXB 1PV6A 1ITLA 3D87A 1Y1VD 3UF5A 1RCBA 5IP7D 4DOHA 2O27A 4YDYI 1HWHA 1CD9A 4A3MD 4BY1D 1KF9A 4IKVA 2Q98A 2O6IA 1Z7CA 3BPOA 1EERA 3HOXD 5D22A 1AU1A 1SCFA 3D85C 5GXBA 2JA7D 1WCMD 4D2DA 1D9GA 4NI7A 4U4VA 4D2CA 5FUCA 3N0PA 1V7NV 3H0GD 4O6KA 3QWRB 2B8XA 4A93D 4IKYA 1AX8A 4EXPA 3UF2A 3LB6B 2Z3QA 1FG9A 3BPLA 2B5IA 5C3ED 1INRA 1EXZA 3N06A 3O7QA 2B63D 4JA3A 4JR9A 4LRLA 4APSA 4J05A 1HZIA 3S9DA 2HYMB 4W6VA 2XUTA 1ITMA 4IU8A 5EQIA 5KNHI 3QB1A 4PS4A 5FHXA 1M4RA 3HOZD 3EW3A 1GNCA 2B8UA 1PVHB 4A3KD 2R93D 1HUWA 1J7VL 1Y6ML 1F6FA 4I77Z 3OQ3A 3DUHC 2R92D 3DGCL 4RS1A 1P9MB 4A3CD 2H24A 4ZS7A 1IK0A 1PW4A 2B8YA 5E4EA 3BESL 4LDSA 3BPNA 2R7ZD 3DLQI 4A3JD 1HIJA 4YUEC 4D2BA 4NEJA 4DKCA 4J4LC 3NCFA 4NKQC 3HHRA 1RHGA 3O7PA 2C35A 5A2NA 4DKEA 1IRLA 1RFBA 3SE4B 1D9CA 1M4BA 1B5LA 5C7XA 3EJJA 2IL6A 1HULA 2KZ1A 3B5KA 5LQBA 3PIVA 4UVMA 3L5WI 1PW6A 2ERJD 5D28B 5D58A 1N1FA 1CSGA 4NEMA 2ILKA 1Y6KL 4O9HA 3HOVD 4DKFA 1BP3A 5C4XD 3Q1SI 3QAZA 3LB6A 1EKUA 1M49A 4WRLB 1LQSL 2OQPA 4IKWA 5TS9A 1CYLA 5C44D 1BCNA 3G9VB 4DKDA 2V8NA 3PO2D 1LKIA 4YBQA 2Q14A 4A3DD 2Z3RA 2D48A 4OH3A 3UX9A 3INKC 1LK3A 4JREA 4IKXA 3MZGA 1WU3I 1BGDA 3DI3A 4A3ID 2JA8D 3H3VE 4LEPA 3HOUD 1IARA 4GBZA 1NBPA 5FLMD 1EVSA 4A3ED 3WDOA 1I1RB 3NPZA 4GS7A 4FA8E 4NN6A 1F45B 3OG4A 1GA3A 3NCCA 1FYHA 1HGUA 3HOYD 5IYCD 3PIWA 1V7MV 4NI9A 2GMFA 4YB9D 4PYPA 5D71A 1AXIA 1VLKA 1IJZA 2PSMA 1IL6A 1Y14A 3G6DA 3SE3B 1JLIA 1A22A 1HIKA 3AYHA 1BUYA 1PGRA 4NN7A 1M4AA 4A3FD 4BXXD 4XNJA 1EMRA 4BBSD 1BGEA 2E9WC 3DI2A 4IKZA 3VA2A 2Y5YA 3NCBA 4TPHA 4X51A 2JA6D 2L3YA 4CNIC 3QT2C 4TPGA 5A2OA 5EQGA 3FKID 3HMXB 1M47A 4EXNA 1M48A 5IYDD 1YKBA 4BBRD 2LMSA 4A3LD 2Q7NB 1CNT1 1A7MA 2D9QA 1PV7A 1BBNA 3UEZE 4YQXA 4ZWBA 1QVNA 4GC0A 4NN5A 2B91A 3HHCA 1ILKA 2VUMD 5IYBD
chains in the Genus database with same CATH topology
4YPGC 4NI7A 2B8ZA 3HOWD 3MZGA 1WU3I 1BGDA 1ETEA 3DI3A 4A3ID 1PY2A 5FUCA 2JA8D 3H3VE 2R7ZD 4BY7D 3N0PA 1V7NV 3DLQI 3H0GD 4O6KA 4A3JD 3QWRB 2B8XA 4ZF7A 1IARA 3OG6A 3HOUD 4A93D 1NBPA 4MHLA 2XQBA 5FLMD 3L5XA 1AX8A 1HIJA 2O26A 4EXPA 3UF2A 5L6YC 3I4MD 1EVSA 4YUEC 3LB6B 1BGCA 4NEJA 4DKCA 4A3ED 2B90A 1I1RB 3NPZA 4J4LC 2Z3QA 3NCFA 2INTA 4GS7A 1FG9A 1Z92A 4NKQC 4FA8E 4NN6A 1F45B 1ALUA 3BPLA 3OG4A 2B5IA 1GA3A 3NCCA 1RW5A 5C3ED 2JA5D 3HHRA 1FYHA 1RHGA 1HGUA 3HOYD 5IYCD 3PIWA 1V7MV 4A3BD 1HWGA 2C35A 4NI9A 2LAGA 1INRA 5IP9D 2GMFA 5D71A 5IYBD 1EXZA 1AXIA 1VLKA 1IJZA 2PSMA 1IL6A 4DKEA 1IRLA 3N06A 2B63D 1RFBA 5D72A 3SE4B 4A3GD 1M4CA 1D9CA 1M4BA 1CN4C 4LRLA 1Y14A 3G6DA 3SE3B 1B5LA 1A22A 1JLIA 1HIKA 3AYHA 1BUYA 3QB7A 5C7XA 1HZIA 1PGRA 3S9DA 2HYMB 1Y6NL 3I4ND 4NN7A 1M4AA 2L3OA 5D70A 4A3FD 3EJJA 4BXXD 3PO3D 2IL6A 1HULA 1EMRA 4BBSD 4Z5RD 3NCEA 2KZ1A 3B5KA 5LQBA 1BGEA 1ITMA 3PIVA 1ITFA 2E9WC 1PW6A 3DI2A 3L5WI 2ERJD 1Y1WD 5D28B 3VA2A 5KNHI 1N1FA 1ITIA 1CSGA 3NCBA 3IRHA 3QB1A 4NEMA 4PS4A 4X51A 3WCYI 2JA6D 2CYKA 2ILKA 1M4RA 2L3YA 5FHXA 3D48P 4CNIC 3HOZD 3EW3A 1GNCA 1Y6KL 4O9HA 2B8UA 1PVHB 3HOVD 4DKFA 3QT2C 1BP3A 5C4XD 4A3KD 4GRWA 3TGXB 3Q1SI 2R93D 3QAZA 2JA7D 1ITLA 1HUWA 1Y1VD 1J7VL 3D87A 3LB6A 3UF5A 1Y6ML 1F6FA 4I77Z 3OQ3A 1RCBA 1EKUA 3FKID 1M49A 5IP7D 3HMXB 4WRLB 4DOHA 2O27A 1LQSL 3DUHC 2OQPA 4YDYI 5TS9A 1M47A 4EXNA 1M48A 2R92D 1CYLA 5IYDD 3DGCL 5C44D 1HWHA 1CD9A 1YKBA 4BBRD 4RS1A 4A3MD 1P9MB 1BCNA 3G9VB 4DKDA 2LMSA 4BY1D 3PO2D 1KF9A 2Q7NB 1CNT1 4A3LD 1A7MA 2D9QA 2H24A 4A3CD 4ZS7A 1IK0A 2Q98A 3UX9A 1LKIA 2O6IA 3INKC 1Z7CA 3BPOA 1EERA 1BBNA 3UEZE 3HOXD 2Q14A 5D22A 4YQXA 4A3DD 1QVNA 2Z3RA 1AU1A 1SCFA 2D48A 2B8YA 3D85C 4NN5A 3BESL 5E4EA 2VUMD 1WCMD 2B91A 3HHCA 1ILKA 1D9GA 1LK3A 3BPNA
chains in the Genus database with same CATH homology


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