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BioLiP
Download all results in tab-seperated text for 594392 receptor-ligand interactions, whose format is explained at readme.txt.
  • Hover over PDB to view the title of the structure. Click PDB to view the structure at the RCSB PDB database. Resolution -1.00 means the resolution is unavailable, e.g., for NMR structures.
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  • Hover over Ligand to view the full ligand name. Click Ligand to view the 2D diagram and other detail information of the ligand.
  • Hover over EC number to view the full name of enzymatic activity.
  • Hover over GO terms to view all GO terms.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    63201 2skc:A (2.4) BS03 FPO 2.4.1.1 GO:0000166 ... P00489 8976550
    63202 2skc:A (2.4) BS04 IMP 2.4.1.1 GO:0000166 ... P00489 8976550
    63203 2skd:A (2.4) BS01 GLC 2.4.1.1 GO:0000166 ... P00489 8976550
    63204 2skd:A (2.4) BS02 PO4 2.4.1.1 GO:0000166 ... P00489 8976550
    63205 2skd:A (2.4) BS03 PLP 2.4.1.1 GO:0000166 ... P00489 8976550
    63206 2skd:A (2.4) BS04 IMP 2.4.1.1 GO:0000166 ... P00489 8976550
    63207 2ske:A (2.46) BS01 GLC 2.4.1.1 GO:0000166 ... P00489 8976550
    63208 2ske:A (2.46) BS02 PO3 2.4.1.1 GO:0000166 ... P00489 8976550
    63209 2ske:A (2.46) BS03 PLP 2.4.1.1 GO:0000166 ... P00489 8976550
    63210 2ske:A (2.46) BS04 IMP 2.4.1.1 GO:0000166 ... P00489 8976550
    63211 2sli:A (1.8) BS01 SKD 4.2.2.15 GO:0004308 ... Q27701 9878409
    63212 2sod:B (2.0) BS01 CU 1.15.1.1 GO:0000209 ... P00442 7175933
    63213 2sod:B (2.0) BS02 ZN 1.15.1.1 GO:0000209 ... P00442 7175933
    63214 2sod:G (2.0) BS01 CU 1.15.1.1 GO:0000209 ... P00442 7175933
    63215 2sod:G (2.0) BS02 ZN 1.15.1.1 GO:0000209 ... P00442 7175933
    63216 2sod:O (2.0) BS01 CU 1.15.1.1 GO:0000209 ... P00442 7175933
    63217 2sod:O (2.0) BS02 ZN 1.15.1.1 GO:0000209 ... P00442 7175933
    63218 2sod:Y (2.0) BS01 CU 1.15.1.1 GO:0000209 ... P00442 7175933
    63219 2sod:Y (2.0) BS02 ZN 1.15.1.1 GO:0000209 ... P00442 7175933
    63220 2spl:A (1.7) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 1629229
    63221 2spm:A (1.7) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 1629229
    63222 2spn:A (1.7) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 1629229
    63223 2spn:A (1.7) BS02 OXY 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 1629229
    63224 2spo:A (1.7) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 1629229
    63225 2sqc:A (2.0) BS01 C8E 4.2.1.129
    5.4.99.17
    GO:0005811 ... P33247 9931258
    63226 2sqc:A (2.0) BS02 C8E 4.2.1.129
    5.4.99.17
    GO:0005811 ... P33247 9931258
    63227 2sqc:A (2.0) BS03 C8E 4.2.1.129
    5.4.99.17
    GO:0005811 ... P33247 9931258
    63228 2sqc:A (2.0) BS04 C8E 4.2.1.129
    5.4.99.17
    GO:0005811 ... P33247 9931258
    63229 2sqc:B (2.0) BS01 C8E 4.2.1.129
    5.4.99.17
    GO:0005811 ... P33247 9931258
    63230 2sqc:B (2.0) BS02 C8E 4.2.1.129
    5.4.99.17
    GO:0005811 ... P33247 9931258
    63231 2sqc:B (2.0) BS03 C8E 4.2.1.129
    5.4.99.17
    GO:0005811 ... P33247 9931258
    63232 2sqc:B (2.0) BS04 C8E 4.2.1.129
    5.4.99.17
    GO:0005811 ... P33247 9931258
    63233 2srt:A (-1.00) BS01 ZN 3.4.24.17 GO:0004222 ... P08254 7656014
    63234 2srt:A (-1.00) BS02 ZN 3.4.24.17 GO:0004222 ... P08254 7656014
    63235 2srt:A (-1.00) BS03 8MI 3.4.24.17 GO:0004222 ... P08254 7656014
    63236 2sta:E (1.8) BS01 peptide 3.4.21.4 GO:0004252 ... P35031 10089404
    63237 2sta:E (1.8) BS02 CA 3.4.21.4 GO:0004252 ... P35031 10089404
    63238 2stb:E (1.8) BS01 peptide 3.4.21.4 GO:0004252 ... P35031 10089404
    63239 2stb:E (1.8) BS02 CA 3.4.21.4 GO:0004252 ... P35031 10089404
    63240 2std:A (2.1) BS01 CRP 4.2.1.94 GO:0005575 ... P56221 9665698 MOAD: Kd=0.14nM
    PDBbind: -logKd/Ki=9.85, Ki=0.14nM
    BindingDB: Ki=30nM
    63241 2taa:A (3.0) BS01 CA 3.2.1.1 GO:0004556 ... P0C1B3 6609921
    63242 2taa:B (3.0) BS01 CA 3.2.1.1 GO:0004556 ... P0C1B3 6609921
    63243 2taa:C (3.0) BS01 CA 3.2.1.1 GO:0004556 ... P0C1B3 6609921
    63244 2tbs:A (1.8) BS01 CA 3.4.21.4 GO:0004252 ... P35031 7846025
    63245 2tbv:A (2.9) BS01 CA ? GO:0005198 ... P11795 6481803
    63246 2tbv:A (2.9) BS02 CA ? GO:0005198 ... P11795 6481803
    63247 2tbv:A (2.9) BS03 CA ? GO:0005198 ... P11795 6481803
    63248 2tbv:B (2.9) BS01 CA ? GO:0005198 ... P11795 6481803
    63249 2tbv:B (2.9) BS02 CA ? GO:0005198 ... P11795 6481803
    63250 2tbv:B (2.9) BS03 CA ? GO:0005198 ... P11795 6481803
    63251 2tbv:C (2.9) BS01 CA ? GO:0005198 ... P11795 6481803
    63252 2tbv:C (2.9) BS02 CA ? GO:0005198 ... P11795 6481803
    63253 2tbv:C (2.9) BS03 CA ? GO:0005198 ... P11795 6481803
    63254 2tci:D (1.8) BS01 peptide ? GO:0005179 ... P01315 7492558
    63255 2tci:D (1.8) BS02 peptide ? GO:0005179 ... P01315 7492558
    63256 2tcl:A (2.2) BS01 ZN 3.4.24.7 GO:0004222 ... P03956 7656013
    63257 2tcl:A (2.2) BS02 ZN 3.4.24.7 GO:0004222 ... P03956 7656013
    63258 2tcl:A (2.2) BS03 CA 3.4.24.7 GO:0004222 ... P03956 7656013
    63259 2tcl:A (2.2) BS04 CA 3.4.24.7 GO:0004222 ... P03956 7656013
    63260 2tcl:A (2.2) BS05 RO4 3.4.24.7 GO:0004222 ... P03956 7656013 MOAD: ic50=9nM
    BindingDB: IC50=40nM
    63261 2tdd:A (2.7) BS01 THF 2.1.1.45 GO:0004799 ... P00469 8343503
    63262 2tdd:A (2.7) BS02 UFP 2.1.1.45 GO:0004799 ... P00469 8343503 BindingDB: Ki=14nM, Kd=10nM
    63263 2tdm:A (2.55) BS01 UMP 2.1.1.45 GO:0004799 ... P00469 8371269
    63264 2tdt:A (2.0) BS01 COA 2.3.1.117 GO:0005737 ... P56220 9671504
    63265 2tdt:A (2.0) BS02 NPI 2.3.1.117 GO:0005737 ... P56220 9671504
    63266 2tec:E (1.98) BS01 CA 3.4.21.66 GO:0004252 ... P04072 2689655
    63267 2tec:E (1.98) BS02 CA 3.4.21.66 GO:0004252 ... P04072 2689655
    63268 2tec:E (1.98) BS03 CA 3.4.21.66 GO:0004252 ... P04072 2689655
    63269 2tga:A (1.8) BS01 CA 3.4.21.4 GO:0004175 ... P00760 N/A
    63270 2tgd:A (2.1) BS01 CA 3.4.21.4 GO:0004175 ... P00760 N/A
    63271 2tgd:A (2.1) BS02 DFP 3.4.21.4 GO:0004175 ... P00760 N/A
    63272 2tgp:Z (1.9) BS01 CA 3.4.21.4 GO:0004175 ... P00760 N/A
    63273 2tgt:A (1.7) BS01 CA 3.4.21.4 GO:0004175 ... P00760 N/A
    63274 2tio:A (1.93) BS01 CA 3.4.21.4 GO:0004175 ... P00760 9920392
    63275 2tio:A (1.93) BS02 SO4 3.4.21.4 GO:0004175 ... P00760 9920392
    63276 2tio:A (1.93) BS03 BEN 3.4.21.4 GO:0004175 ... P00760 9920392
    63277 2tio:A (1.93) BS04 HEX 3.4.21.4 GO:0004175 ... P00760 9920392
    63278 2tmk:A (2.4) BS01 ATM 2.7.4.9 GO:0004550 ... P00572 9253404
    63279 2tmk:B (2.4) BS01 ATM 2.7.4.9 GO:0004550 ... P00572 9253404
    63280 2tmv:P (2.9) BS01 rna ? GO:0005198 ... P69687 2769760
    63281 2tn4:A (2.0) BS01 CA ? GO:0005509 ... P02586 9438870
    63282 2tn4:A (2.0) BS02 CA ? GO:0005509 ... P02586 9438870
    63283 2tn4:A (2.0) BS03 CA ? GO:0005509 ... P02586 9438870
    63284 2tn4:A (2.0) BS04 CA ? GO:0005509 ... P02586 9438870
    63285 2tn4:A (2.0) BS05 CA ? GO:0005509 ... P02586 9438870
    63286 2tod:A (2.0) BS01 DMO 4.1.1.17 GO:0003824 ... P07805 10563800
    63287 2tod:A (2.0) BS02 PLP 4.1.1.17 GO:0003824 ... P07805 10563800
    63288 2tod:A (2.0) BS03 DMO 4.1.1.17 GO:0003824 ... P07805 10563800
    63289 2tod:B (2.0) BS01 PLP 4.1.1.17 GO:0003824 ... P07805 10563800
    63290 2tod:B (2.0) BS02 DMO 4.1.1.17 GO:0003824 ... P07805 10563800
    63291 2tod:C (2.0) BS01 DMO 4.1.1.17 GO:0003824 ... P07805 10563800
    63292 2tod:C (2.0) BS02 PLP 4.1.1.17 GO:0003824 ... P07805 10563800
    63293 2tod:D (2.0) BS01 DMO 4.1.1.17 GO:0003824 ... P07805 10563800
    63294 2tod:D (2.0) BS02 PLP 4.1.1.17 GO:0003824 ... P07805 10563800
    63295 2tod:D (2.0) BS03 DMO 4.1.1.17 GO:0003824 ... P07805 10563800
    63296 2tpi:Z (2.1) BS01 ILE 3.4.21.4 GO:0004175 ... P00760 N/A PDBbind: -logKd/Ki=4.31, Kd=49uM
    63297 2tpi:Z (2.1) BS02 VAL 3.4.21.4 GO:0004175 ... P00760 N/A PDBbind: -logKd/Ki=4.31, Kd=49uM
    63298 2tpr:A (2.4) BS01 FAD 1.8.1.12 GO:0004362 ... P39040 1924336
    63299 2tpr:B (2.4) BS01 FAD 1.8.1.12 GO:0004362 ... P39040 1924336
    63300 2tps:A (1.25) BS01 MG 2.5.1.3 GO:0000287 ... P39594 10350464
    63301 2tps:A (1.25) BS02 TPS 2.5.1.3 GO:0000287 ... P39594 10350464
    63302 2tps:A (1.25) BS03 POP 2.5.1.3 GO:0000287 ... P39594 10350464
    63303 2tps:B (1.25) BS01 MG 2.5.1.3 GO:0000287 ... P39594 10350464
    63304 2tps:B (1.25) BS02 TPS 2.5.1.3 GO:0000287 ... P39594 10350464
    63305 2tps:B (1.25) BS03 POP 2.5.1.3 GO:0000287 ... P39594 10350464
    63306 2trm:A (2.8) BS01 CA 3.4.21.4 GO:0004252 ... P00763 3112942
    63307 2trs:A (2.04) BS01 IPL 4.2.1.20 GO:0000162 ... P00929 9201907
    63308 2trs:B (2.04) BS01 PLS 4.2.1.20 GO:0000162 ... P0A2K1 9201907
    63309 2trx:A (1.68) BS01 CU ? GO:0005515 ... P0AA25 2181145
    63310 2trx:B (1.68) BS01 CU ? GO:0005515 ... P0AA25 2181145
    63311 2tsa:A (2.2) BS01 CU ? GO:0005507 ... P00282 15299604
    63312 2tsa:B (2.2) BS01 CU ? GO:0005507 ... P00282 15299604
    63313 2tsa:C (2.2) BS01 CU ? GO:0005507 ... P00282 15299604
    63314 2tsa:D (2.2) BS01 CU ? GO:0005507 ... P00282 15299604
    63315 2tsb:A (2.3) BS01 AZI ? GO:0005507 ... P00282 15299604
    63316 2tsb:A (2.3) BS02 CU ? GO:0005507 ... P00282 15299604
    63317 2tsb:B (2.3) BS01 AZI ? GO:0005507 ... P00282 15299604
    63318 2tsb:B (2.3) BS02 CU ? GO:0005507 ... P00282 15299604
    63319 2tsb:C (2.3) BS01 AZI ? GO:0005507 ... P00282 15299604
    63320 2tsb:C (2.3) BS02 CU ? GO:0005507 ... P00282 15299604
    63321 2tsb:D (2.3) BS01 AZI ? GO:0005507 ... P00282 15299604
    63322 2tsb:D (2.3) BS02 CU ? GO:0005507 ... P00282 15299604
    63323 2tsc:A (1.97) BS01 UMP 2.1.1.45 GO:0000287 ... P0A884 2223754
    63324 2tsc:A (1.97) BS02 UMP 2.1.1.45 GO:0000287 ... P0A884 2223754
    63325 2tsc:B (1.97) BS01 UMP 2.1.1.45 GO:0000287 ... P0A884 2223754
    63326 2tsc:B (1.97) BS02 UMP 2.1.1.45 GO:0000287 ... P0A884 2223754
    63327 2tsr:A (2.6) BS01 UMP 2.1.1.45 GO:0000900 ... P45352 9894005
    63328 2tsr:A (2.6) BS02 D16 2.1.1.45 GO:0000900 ... P45352 9894005 PDBbind: -logKd/Ki=7.54, Ki=29nM
    63329 2tsr:A (2.6) BS03 UMP 2.1.1.45 GO:0000900 ... P45352 9894005
    63330 2tsr:B (2.6) BS01 UMP 2.1.1.45 GO:0000900 ... P45352 9894005
    63331 2tsr:B (2.6) BS02 D16 2.1.1.45 GO:0000900 ... P45352 9894005 PDBbind: -logKd/Ki=7.54, Ki=29nM
    63332 2tsr:C (2.6) BS01 UMP 2.1.1.45 GO:0000900 ... P45352 9894005
    63333 2tsr:C (2.6) BS02 D16 2.1.1.45 GO:0000900 ... P45352 9894005
    63334 2tsr:C (2.6) BS03 UMP 2.1.1.45 GO:0000900 ... P45352 9894005
    63335 2tsr:D (2.6) BS01 UMP 2.1.1.45 GO:0000900 ... P45352 9894005
    63336 2tsr:D (2.6) BS02 D16 2.1.1.45 GO:0000900 ... P45352 9894005
    63337 2tsy:A (2.5) BS01 G3P 4.2.1.20 GO:0000162 ... P00929 9201907
    63338 2tsy:B (2.5) BS01 PLS 4.2.1.20 GO:0000162 ... P0A2K1 9201907
    63339 2tys:B (1.9) BS01 PLT 4.2.1.20 GO:0000162 ... P0A2K1 9201907
    63340 2uag:A (1.7) BS01 MG 6.3.2.9 GO:0005515 ... P14900 10356330
    63341 2uag:A (1.7) BS02 UMA 6.3.2.9 GO:0005515 ... P14900 10356330
    63342 2uag:A (1.7) BS03 ADP 6.3.2.9 GO:0005515 ... P14900 10356330
    63343 2ubp:C (2.0) BS01 NI 3.5.1.5 GO:0005737 ... P41020 10368287
    63344 2ubp:C (2.0) BS02 NI 3.5.1.5 GO:0005737 ... P41020 10368287
    63345 2udp:A (1.8) BS01 NAD 5.1.3.2 GO:0003978 ... P09147 8931134
    63346 2udp:A (1.8) BS02 UPP 5.1.3.2 GO:0003978 ... P09147 8931134
    63347 2udp:B (1.8) BS01 NAD 5.1.3.2 GO:0003978 ... P09147 8931134
    63348 2udp:B (1.8) BS02 UPP 5.1.3.2 GO:0003978 ... P09147 8931134
    63349 2ukd:A (2.2) BS01 ADP 2.7.4.14 GO:0000287 ... P20425 9280438
    63350 2ukd:A (2.2) BS02 C5P 2.7.4.14 GO:0000287 ... P20425 9280438
    63351 2usn:A (2.2) BS01 ZN 3.4.24.17 GO:0004222 ... P08254 9792098
    63352 2usn:A (2.2) BS02 ZN 3.4.24.17 GO:0004222 ... P08254 9792098
    63353 2usn:A (2.2) BS03 CA 3.4.24.17 GO:0004222 ... P08254 9792098
    63354 2usn:A (2.2) BS04 CA 3.4.24.17 GO:0004222 ... P08254 9792098
    63355 2usn:A (2.2) BS05 CA 3.4.24.17 GO:0004222 ... P08254 9792098
    63356 2usn:A (2.2) BS06 IN8 3.4.24.17 GO:0004222 ... P08254 9792098 MOAD: Ki=0.31uM
    PDBbind: -logKd/Ki=6.51, Ki=0.31uM
    63357 2uu7:A (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63358 2uu7:B (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63359 2uu7:C (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63360 2uu7:D (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63361 2uu7:E (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63362 2uu7:F (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63363 2uu7:G (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63364 2uu7:H (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63365 2uu7:I (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63366 2uu7:J (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63367 2uu7:K (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63368 2uu7:L (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63369 2uu7:M (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63370 2uu7:N (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63371 2uu7:O (3.0) BS01 MG 2.3.1.225
    6.3.1.2
    GO:0001525 ... Q8HZM5 18005987
    63372 2uu9:B (3.1) BS01 rna ? GO:0003735 ... P80371 17496902
    63373 2uu9:B (3.1) BS02 MG ? GO:0003735 ... P80371 17496902
    63374 2uu9:C (3.1) BS01 rna ? GO:0003676 ... P80372 17496902
    63375 2uu9:D (3.1) BS01 rna ? GO:0003723 ... P80373 17496902
    63376 2uu9:E (3.1) BS01 rna ? GO:0003723 ... Q5SHQ5 17496902
    63377 2uu9:F (3.1) BS01 rna ? GO:0003735 ... Q5SLP8 17496902
    63378 2uu9:G (3.1) BS01 rna ? GO:0000028 ... P17291 17496902
    63379 2uu9:H (3.1) BS01 rna ? GO:0003735 ... P0DOY9 17496902
    63380 2uu9:I (3.1) BS01 rna ? GO:0000049 ... P80374 17496902
    63381 2uu9:J (3.1) BS01 rna ? GO:0000049 ... Q5SHN7 17496902
    63382 2uu9:K (3.1) BS01 rna ? GO:0003735 ... P80376 17496902
    63383 2uu9:L (3.1) BS01 rna ? GO:0000049 ... Q5SHN3 17496902
    63384 2uu9:L (3.1) BS02 MG ? GO:0000049 ... Q5SHN3 17496902
    63385 2uu9:M (3.1) BS01 rna ? GO:0000049 ... P80377 17496902
    63386 2uu9:M (3.1) BS02 MG ? GO:0000049 ... P80377 17496902
    63387 2uu9:N (3.1) BS01 rna ? GO:0003735 ... P0DOY6 17496902
    63388 2uu9:N (3.1) BS02 ZN ? GO:0003735 ... P0DOY6 17496902
    63389 2uu9:O (3.1) BS01 rna ? GO:0003735 ... Q5SJ76 17496902
    63390 2uu9:P (3.1) BS01 rna ? GO:0003735 ... Q5SJH3 17496902
    63391 2uu9:Q (3.1) BS01 rna ? GO:0003735 ... P0DOY7 17496902
    63392 2uu9:Q (3.1) BS02 MG ? GO:0003735 ... P0DOY7 17496902
    63393 2uu9:R (3.1) BS01 rna ? GO:0003735 ... Q5SLQ0 17496902
    63394 2uu9:S (3.1) BS01 rna ? GO:0000028 ... Q5SHP2 17496902
    63395 2uu9:T (3.1) BS01 rna ? GO:0003723 ... P80380 17496902
    63396 2uua:B (2.9) BS01 rna ? GO:0003735 ... P80371 17496902
    63397 2uua:B (2.9) BS02 MG ? GO:0003735 ... P80371 17496902
    63398 2uua:C (2.9) BS01 rna ? GO:0003676 ... P80372 17496902
    63399 2uua:D (2.9) BS01 rna ? GO:0003723 ... P80373 17496902
    63400 2uua:D (2.9) BS02 MG ? GO:0003723 ... P80373 17496902

    Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).
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