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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.
  • Click Site # to view the binding site structure. Hover over Site # to view the binding residues.
  • 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.
  • Hover over UniProt to view the protein name.

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    # PDB
    (Resolution Å)     		Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    153201 4tue:RP (3.5) BS01 rna ? GO:0003735 ... Q5SHQ7 25352689
    153202 4tue:RP (3.5) BS02 MG ? GO:0003735 ... Q5SHQ7 25352689
    153203 4tue:RQ (3.5) BS01 rna ? GO:0000049 ... P60489 25352689
    153204 4tue:RQ (3.5) BS02 rna ? GO:0000049 ... P60489 25352689
    153205 4tue:RR (3.5) BS01 rna ? GO:0003735 ... Q9Z9H5 25352689
    153206 4tue:RS (3.5) BS01 rna ? GO:0003735 ... Q5SHQ4 25352689
    153207 4tue:RS (3.5) BS02 rna ? GO:0003735 ... Q5SHQ4 25352689
    153208 4tue:RT (3.5) BS01 rna ? GO:0003735 ... P60490 25352689
    153209 4tue:RT (3.5) BS02 rna ? GO:0003735 ... P60490 25352689
    153210 4tue:RU (3.5) BS01 rna ? GO:0000027 ... P60491 25352689
    153211 4tue:RV (3.5) BS01 rna ? GO:0003723 ... P60492 25352689
    153212 4tue:RW (3.5) BS01 rna ? GO:0003735 ... Q5SHP3 25352689
    153213 4tue:RX (3.5) BS01 rna ? GO:0000027 ... Q5SHP0 25352689
    153214 4tue:RY (3.5) BS01 rna ? GO:0003723 ... Q5SHP9 25352689
    153215 4tue:RZ (3.5) BS01 rna ? GO:0003723 ... Q5SHZ1 25352689
    153216 4tue:RZ (3.5) BS02 rna ? GO:0003723 ... Q5SHZ1 25352689
    153217 4tue:XB (3.5) BS01 rna ? GO:0003735 ... P80371 25352689
    153218 4tue:XC (3.5) BS01 rna ? GO:0003676 ... P80372 25352689
    153219 4tue:XD (3.5) BS01 rna ? GO:0003723 ... P80373 25352689
    153220 4tue:XD (3.5) BS02 ZN ? GO:0003723 ... P80373 25352689
    153221 4tue:XE (3.5) BS01 rna ? GO:0003723 ... Q5SHQ5 25352689
    153222 4tue:XF (3.5) BS01 rna ? GO:0003735 ... Q5SLP8 25352689
    153223 4tue:XG (3.5) BS01 rna ? GO:0000028 ... P17291 25352689
    153224 4tue:XH (3.5) BS01 rna ? GO:0003735 ... P0DOY9 25352689
    153225 4tue:XI (3.5) BS01 rna ? GO:0000049 ... P80374 25352689
    153226 4tue:XI (3.5) BS02 rna ? GO:0000049 ... P80374 25352689
    153227 4tue:XJ (3.5) BS01 rna ? GO:0000049 ... Q5SHN7 25352689
    153228 4tue:XK (3.5) BS01 rna ? GO:0003735 ... P80376 25352689
    153229 4tue:XL (3.5) BS01 rna ? GO:0000049 ... Q5SHN3 25352689
    153230 4tue:XL (3.5) BS02 rna ? GO:0000049 ... Q5SHN3 25352689
    153231 4tue:XM (3.5) BS01 rna ? GO:0000049 ... P80377 25352689
    153232 4tue:XM (3.5) BS02 rna ? GO:0000049 ... P80377 25352689
    153233 4tue:XN (3.5) BS01 rna ? GO:0003735 ... P0DOY6 25352689
    153234 4tue:XN (3.5) BS02 ZN ? GO:0003735 ... P0DOY6 25352689
    153235 4tue:XO (3.5) BS01 rna ? GO:0003735 ... Q5SJ76 25352689
    153236 4tue:XO (3.5) BS02 rna ? GO:0003735 ... Q5SJ76 25352689
    153237 4tue:XP (3.5) BS01 rna ? GO:0003735 ... Q5SJH3 25352689
    153238 4tue:XQ (3.5) BS01 rna ? GO:0003735 ... P0DOY7 25352689
    153239 4tue:XR (3.5) BS01 rna ? GO:0003735 ... Q5SLQ0 25352689
    153240 4tue:XS (3.5) BS01 rna ? GO:0000028 ... Q5SHP2 25352689
    153241 4tue:XT (3.5) BS01 rna ? GO:0003723 ... P80380 25352689
    153242 4tue:Y0 (3.5) BS01 rna ? GO:0003735 ... P60493 25352689
    153243 4tue:Y0 (3.5) BS02 rna ? GO:0003735 ... P60493 25352689
    153244 4tue:Y0 (3.5) BS03 rna ? GO:0003735 ... P60493 25352689
    153245 4tue:Y1 (3.5) BS01 rna ? GO:0003735 ... P60494 25352689
    153246 4tue:Y2 (3.5) BS01 rna ? GO:0003735 ... Q5SHP6 25352689
    153247 4tue:Y3 (3.5) BS01 rna ? GO:0003735 ... Q5SHQ6 25352689
    153248 4tue:Y3 (3.5) BS02 rna ? GO:0003735 ... Q5SHQ6 25352689
    153249 4tue:Y4 (3.5) BS01 rna ? GO:0003735 ... Q5SJE1 25352689
    153250 4tue:Y4 (3.5) BS02 rna ? GO:0003735 ... Q5SJE1 25352689
    153251 4tue:Y5 (3.5) BS01 rna ? GO:0003735 ... P80339 25352689
    153252 4tue:Y6 (3.5) BS01 rna ? GO:0000049 ... P35871 25352689
    153253 4tue:Y7 (3.5) BS01 rna ? GO:0003735 ... P80340 25352689
    153254 4tue:Y8 (3.5) BS01 rna ? GO:0003735 ... Q5SKU1 25352689
    153255 4tue:Y9 (3.5) BS01 rna ? GO:0003735 ... Q5SHR2 25352689
    153256 4tue:YD (3.5) BS01 rna ? GO:0002181 ... P60405 25352689
    153257 4tue:YD (3.5) BS02 MG ? GO:0002181 ... P60405 25352689
    153258 4tue:YE (3.5) BS01 rna ? GO:0003735 ... Q5SHN8 25352689
    153259 4tue:YF (3.5) BS01 rna ? GO:0003735 ... Q5SHN9 25352689
    153260 4tue:YG (3.5) BS01 rna ? GO:0000049 ... Q5SHQ0 25352689
    153261 4tue:YG (3.5) BS02 rna ? GO:0000049 ... Q5SHQ0 25352689
    153262 4tue:YH (3.5) BS01 rna ? GO:0002181 ... P0DOY8 25352689
    153263 4tue:YI (3.5) BS01 rna ? GO:0003735 ... Q5SLQ1 25352689
    153264 4tue:YI (3.5) BS02 rna ? GO:0003735 ... Q5SLQ1 25352689
    153265 4tue:YN (3.5) BS01 rna ? GO:0003729 ... P60488 25352689
    153266 4tue:YO (3.5) BS01 rna ? GO:0003735 ... Q5SHP8 25352689
    153267 4tue:YO (3.5) BS02 rna ? GO:0003735 ... Q5SHP8 25352689
    153268 4tue:YP (3.5) BS01 rna ? GO:0003735 ... Q5SHQ7 25352689
    153269 4tue:YQ (3.5) BS01 rna ? GO:0000049 ... P60489 25352689
    153270 4tue:YQ (3.5) BS02 rna ? GO:0000049 ... P60489 25352689
    153271 4tue:YQ (3.5) BS03 MG ? GO:0000049 ... P60489 25352689
    153272 4tue:YR (3.5) BS01 rna ? GO:0003735 ... Q9Z9H5 25352689
    153273 4tue:YS (3.5) BS01 rna ? GO:0003735 ... Q5SHQ4 25352689
    153274 4tue:YS (3.5) BS02 rna ? GO:0003735 ... Q5SHQ4 25352689
    153275 4tue:YT (3.5) BS01 rna ? GO:0003735 ... P60490 25352689
    153276 4tue:YT (3.5) BS02 rna ? GO:0003735 ... P60490 25352689
    153277 4tue:YU (3.5) BS01 rna ? GO:0000027 ... P60491 25352689
    153278 4tue:YV (3.5) BS01 rna ? GO:0003723 ... P60492 25352689
    153279 4tue:YW (3.5) BS01 rna ? GO:0003735 ... Q5SHP3 25352689
    153280 4tue:YX (3.5) BS01 rna ? GO:0000027 ... Q5SHP0 25352689
    153281 4tue:YY (3.5) BS01 rna ? GO:0003723 ... Q5SHP9 25352689
    153282 4tue:YZ (3.5) BS01 rna ? GO:0003723 ... Q5SHZ1 25352689
    153283 4tue:YZ (3.5) BS02 rna ? GO:0003723 ... Q5SHZ1 25352689
    153284 4tun:A (1.925) BS01 MVH 3.2.1.17 GO:0003796 ... P00698 24969463 PDBbind: -logKd/Ki=5.41, Kd=3.87uM
    153285 4tun:B (1.925) BS01 MVH 3.2.1.17 GO:0003796 ... P00698 24969463
    153286 4tup:A (1.8) BS01 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153287 4tup:A (1.8) BS02 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153288 4tup:A (1.8) BS03 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153289 4tuq:A (2.367) BS01 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153290 4tuq:A (2.367) BS02 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153291 4tuq:A (2.367) BS03 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153292 4tuq:A (2.367) BS04 MG 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153293 4tuq:A (2.367) BS05 MG 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153294 4tuq:A (2.367) BS06 0KX 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153295 4tur:A (2.169) BS01 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153296 4tur:A (2.169) BS02 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153297 4tur:A (2.169) BS03 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153298 4tur:A (2.169) BS04 MG 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153299 4tur:A (2.169) BS05 MG 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153300 4tur:A (2.169) BS06 0KX 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153301 4tus:A (2.42) BS01 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153302 4tus:A (2.42) BS02 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153303 4tus:A (2.42) BS03 dna 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153304 4tus:A (2.42) BS04 MN 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153305 4tus:A (2.42) BS05 MN 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153306 4tus:A (2.42) BS06 0KX 2.7.7.7
    4.2.99.-
    4.2.99.18    		 GO:0001701 ... P06746 25237188
    153307 4tuv:A (2.501) BS01 HEM 1.11.1.7
    1.14.-.-    		 GO:0004497 ... Q55080 N/A
    153308 4tuv:A (2.501) BS02 CPZ 1.11.1.7
    1.14.-.-    		 GO:0004497 ... Q55080 N/A
    153309 4tuy:A (2.1) BS01 GTP 3.6.5.- GO:0000226 ... P81947 25114240
    153310 4tuy:A (2.1) BS02 CA 3.6.5.- GO:0000226 ... P81947 25114240
    153311 4tuy:B (2.1) BS01 GDP ? GO:0000226 ... Q6B856 25114240
    153312 4tuy:C (2.1) BS01 GTP 3.6.5.- GO:0000226 ... P81947 25114240
    153313 4tuy:C (2.1) BS02 CA 3.6.5.- GO:0000226 ... P81947 25114240
    153314 4tuy:D (2.1) BS01 GDP ? GO:0000226 ... Q6B856 25114240
    153315 4tuy:D (2.1) BS02 36L ? GO:0000226 ... Q6B856 25114240
    153316 4tv5:A (1.85) BS01 CA ? GO:0003824 ... A0A0H3K9Z0 25336653
    153317 4tv5:A (1.85) BS02 CA ? GO:0003824 ... A0A0H3K9Z0 25336653
    153318 4tv6:A (2.6) BS01 OAA ? GO:0003824 ... A0A0H3K9Z0 25336653
    153319 4tv8:A (2.103) BS01 GTP 3.6.5.- GO:0000226 ... P81947 25114240
    153320 4tv8:A (2.103) BS02 CA 3.6.5.- GO:0000226 ... P81947 25114240
    153321 4tv8:B (2.103) BS01 GDP ? GO:0000226 ... Q6B856 25114240
    153322 4tv8:C (2.103) BS01 GTP 3.6.5.- GO:0000226 ... P81947 25114240
    153323 4tv8:C (2.103) BS02 CA 3.6.5.- GO:0000226 ... P81947 25114240
    153324 4tv8:D (2.103) BS01 GDP ? GO:0000226 ... Q6B856 25114240
    153325 4tv8:D (2.103) BS02 3GT ? GO:0000226 ... Q6B856 25114240
    153326 4tv9:A (2.0) BS01 GTP 3.6.5.- GO:0000226 ... P81947 25114240
    153327 4tv9:A (2.0) BS02 CA 3.6.5.- GO:0000226 ... P81947 25114240
    153328 4tv9:B (2.0) BS01 GDP ? GO:0000226 ... Q6B856 25114240
    153329 4tv9:C (2.0) BS01 GTP 3.6.5.- GO:0000226 ... P81947 25114240
    153330 4tv9:C (2.0) BS02 CA 3.6.5.- GO:0000226 ... P81947 25114240
    153331 4tv9:D (2.0) BS01 GDP ? GO:0000226 ... Q6B856 25114240
    153332 4tv9:D (2.0) BS02 3H4 ? GO:0000226 ... Q6B856 25114240
    153333 4tva:A (2.597) BS01 PHE 6.1.1.20 GO:0000049 ... P27001 25775602
    153334 4tva:B (2.597) BS01 PUY 6.1.1.20 GO:0000049 ... Q5SGX1 25775602
    153335 4tvk:A (2.3) BS01 TJH 3.1.1.7 GO:0001507 ... P04058 25259726
    153336 4tvm:A (2.6) BS01 OAA 2.3.3.16 GO:0004108 ... P9WPD5 25524525
    153337 4tvp:G (3.1) BS01 MAN ? GO:0019031 ... Q2N0S5 25296255
    153338 4tvq:C (2.8) BS01 peptide ? GO:0000139 ... Q9BUL8 25825518
    153339 4tvt:A (1.2) BS01 ASC ? GO:0005576 ... P02883 26027487
    153340 4tvt:A (1.2) BS02 ASC ? GO:0005576 ... P02883 26027487
    153341 4tvt:A (1.2) BS03 ASC ? GO:0005576 ... P02883 26027487
    153342 4tvt:A (1.2) BS04 ASC ? GO:0005576 ... P02883 26027487
    153343 4tvv:A (1.4) BS01 PO4 3.1.3.48 GO:0004725 ... Q5ZRR1 25339170
    153344 4tvv:A (1.4) BS02 PO4 3.1.3.48 GO:0004725 ... Q5ZRR1 25339170
    153345 4tvv:B (1.4) BS01 PO4 3.1.3.48 GO:0004725 ... Q5ZRR1 25339170
    153346 4tvv:B (1.4) BS02 PO4 3.1.3.48 GO:0004725 ... Q5ZRR1 25339170
    153347 4tvv:C (1.4) BS01 PO4 3.1.3.48 GO:0004725 ... Q5ZRR1 25339170
    153348 4tvv:C (1.4) BS02 PO4 3.1.3.48 GO:0004725 ... Q5ZRR1 25339170
    153349 4tvv:D (1.4) BS01 PO4 3.1.3.48 GO:0004725 ... Q5ZRR1 25339170
    153350 4tvv:D (1.4) BS02 PO4 3.1.3.48 GO:0004725 ... Q5ZRR1 25339170
    153351 4tvw:A (3.505) BS01 37P 6.3.1.20 GO:0005524 ... P32099 25313043
    153352 4tvw:B (3.505) BS01 37P 6.3.1.20 GO:0005524 ... P32099 25313043
    153353 4tvw:C (3.505) BS01 37P 6.3.1.20 GO:0005524 ... P32099 25313043
    153354 4tvw:D (3.505) BS01 37P 6.3.1.20 GO:0005524 ... P32099 25313043
    153355 4tvx:A (3.24) BS01 rna 3.1.-.- GO:0003723 ... Q46897 25103409
    153356 4tvx:B (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153357 4tvx:C (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153358 4tvx:D (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153359 4tvx:E (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153360 4tvx:F (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153361 4tvx:G (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153362 4tvx:H (3.24) BS01 rna ? GO:0003723 ... Q46898 25103409
    153363 4tvx:I (3.24) BS01 rna ? GO:0003677 ... Q46901 25103409
    153364 4tvx:I (3.24) BS02 ZN ? GO:0003677 ... Q46901 25103409
    153365 4tvx:M (3.24) BS01 rna 3.1.-.- GO:0003723 ... Q46897 25103409
    153366 4tvx:N (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153367 4tvx:O (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153368 4tvx:P (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153369 4tvx:Q (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153370 4tvx:R (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153371 4tvx:S (3.24) BS01 rna ? GO:0003723 ... Q46899 25103409
    153372 4tvx:T (3.24) BS01 rna ? GO:0003723 ... Q46898 25103409
    153373 4tvx:U (3.24) BS01 rna ? GO:0003677 ... Q46901 25103409
    153374 4tvx:U (3.24) BS02 ZN ? GO:0003677 ... Q46901 25103409
    153375 4tvy:A (2.151) BS01 37R 6.3.1.20 GO:0005524 ... P32099 25313043
    153376 4tvy:A (2.151) BS02 37R 6.3.1.20 GO:0005524 ... P32099 25313043
    153377 4tvy:B (2.151) BS01 37R 6.3.1.20 GO:0005524 ... P32099 25313043
    153378 4tvy:B (2.151) BS02 37R 6.3.1.20 GO:0005524 ... P32099 25313043
    153379 4twb:A (2.802) BS01 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153380 4twb:A (2.802) BS02 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153381 4twb:B (2.802) BS01 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153382 4twb:B (2.802) BS02 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153383 4twb:C (2.802) BS01 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153384 4twb:C (2.802) BS02 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153385 4twb:D (2.802) BS01 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153386 4twb:D (2.802) BS02 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153387 4twb:E (2.802) BS01 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153388 4twb:E (2.802) BS02 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153389 4twb:F (2.802) BS01 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153390 4twb:F (2.802) BS02 AMP 2.7.6.1 GO:0000287 ... Q97Z86 25605536
    153391 4twd:A (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693 PDBbind: -logKd/Ki=5.08, IC50=8.3uM
    153392 4twd:B (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693
    153393 4twd:C (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693
    153394 4twd:C (3.2) BS02 377 ? GO:0004888 ... P0C7B7 25199693
    153395 4twd:D (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693
    153396 4twd:E (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693 PDBbind: -logKd/Ki=5.08, IC50=8.3uM
    153397 4twd:F (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693
    153398 4twd:G (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693
    153399 4twd:H (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693
    153400 4twd:I (3.2) BS01 377 ? GO:0004888 ... P0C7B7 25199693
    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)(download the PDF file).
  • 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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