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●TM-score ●TM-align ●US-align ●MM-align ●RNA-align ●NW-align ●LS-align ●EDTSurf ●MVP ●MVP-Fit ●SPICKER ●HAAD ●PSSpred ●3DRobot ●MR-REX ●I-TASSER-MR ●SVMSEQ ●NeBcon ●ResPRE ●TripletRes ●DeepPotential ●WDL-RF ●ATPbind ●DockRMSD ●DeepMSA ●FASPR ●EM-Refiner ●GPU-I-TASSER

●BioLiP ●E. coli ●GLASS ●GPCR-HGmod ●GPCR-RD ●GPCR-EXP ●Tara-3D ●TM-fold ●DECOYS ●POTENTIAL ●RW/RWplus ●EvoEF ●HPSF ●THE-DB ●ADDRESS ●Alpaca-Antibody ●CASP7 ●CASP8 ●CASP9 ●CASP10 ●CASP11 ●CASP12 ●CASP13 ●CASP14

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
    94201 3kmd:C (2.15) BS02 dna ? GO:0000976 ... P04637 20159469
    94202 3kmd:C (2.15) BS03 ZN ? GO:0000976 ... P04637 20159469
    94203 3kmd:D (2.15) BS01 dna ? GO:0000976 ... P04637 20159469
    94204 3kmd:D (2.15) BS02 dna ? GO:0000976 ... P04637 20159469
    94205 3kmd:D (2.15) BS03 ZN ? GO:0000976 ... P04637 20159469
    94206 3kmf:A (2.0) BS01 HEM ? GO:0004601 ... P69905 20230836
    94207 3kmf:C (2.0) BS01 HEM ? GO:0004601 ... P68871 20230836
    94208 3kmf:E (2.0) BS01 HEM ? GO:0004601 ... P69905 20230836
    94209 3kmf:G (2.0) BS01 HEM ? GO:0004601 ... P68871 20230836
    94210 3kmg:A (2.1) BS01 peptide ? GO:0003677 ... P37231 N/A
    94211 3kmg:A (2.1) BS02 538 ? GO:0003677 ... P37231 N/A BindingDB: EC50=0.8nM, IC50=8nM
    94212 3kmg:D (2.1) BS01 peptide ? GO:0003677 ... P37231 N/A
    94213 3kmg:D (2.1) BS02 538 ? GO:0003677 ... P37231 N/A BindingDB: EC50=0.8nM, IC50=8nM
    94214 3kmn:A (1.8) BS01 CA 2.5.1.18 GO:0000302 ... P09211 N/A
    94215 3kmn:A (1.8) BS02 CO3 2.5.1.18 GO:0000302 ... P09211 N/A
    94216 3kmn:B (1.8) BS01 CA 2.5.1.18 GO:0000302 ... P09211 N/A
    94217 3kmn:B (1.8) BS02 CO3 2.5.1.18 GO:0000302 ... P09211 N/A
    94218 3kmo:A (2.6) BS01 GSH 2.5.1.18 GO:0000302 ... P09211 N/A
    94219 3kmo:A (2.6) BS02 EAA 2.5.1.18 GO:0000302 ... P09211 N/A BindingDB: IC50=2.6e+4nM
    94220 3kmo:A (2.6) BS03 CA 2.5.1.18 GO:0000302 ... P09211 N/A
    94221 3kmo:B (2.6) BS01 GSH 2.5.1.18 GO:0000302 ... P09211 N/A
    94222 3kmo:B (2.6) BS02 CA 2.5.1.18 GO:0000302 ... P09211 N/A
    94223 3kmo:B (2.6) BS03 EAA 2.5.1.18 GO:0000302 ... P09211 N/A BindingDB: IC50=2.6e+4nM
    94224 3kmp:A (2.7) BS01 dna ? GO:0005667 ... P70340 20147459 PDBbind: Kd=111.9nM
    94225 3kmp:A (2.7) BS02 dna ? GO:0005667 ... P70340 20147459 PDBbind: Kd=111.9nM
    94226 3kmp:A (2.7) BS03 ZN ? GO:0005667 ... P70340 20147459
    94227 3kmp:B (2.7) BS01 dna ? GO:0005667 ... P70340 20147459 PDBbind: Kd=111.9nM
    94228 3kmp:B (2.7) BS02 dna ? GO:0005667 ... P70340 20147459 PDBbind: Kd=111.9nM
    94229 3kmp:B (2.7) BS03 ZN ? GO:0005667 ... P70340 20147459
    94230 3kmr:A (1.8) BS01 peptide ? GO:0003677 ... P10276 20543827
    94231 3kmr:A (1.8) BS02 EQN ? GO:0003677 ... P10276 20543827 BindingDB: Kd=36nM, EC50=2nM, IC50=41nM
    94232 3kmx:A (1.7) BS01 G00 3.4.23.46 GO:0004190 ... P56817 20043700 MOAD: Kd=15uM
    PDBbind: -logKd/Ki=4.82, Kd=15uM
    BindingDB: Kd=15nM, IC50=200nM
    94233 3kmx:B (1.7) BS01 G00 3.4.23.46 GO:0004190 ... P56817 20043700 MOAD: Kd=15uM
    BindingDB: Kd=15nM, IC50=200nM
    94234 3kmy:A (1.9) BS01 D8Y 3.4.23.46 GO:0004190 ... P56817 20043700 MOAD: Kd=32uM
    PDBbind: -logKd/Ki=4.49, Kd=32uM
    BindingDB: Kd=32nM
    94235 3kmy:B (1.9) BS01 D8Y 3.4.23.46 GO:0004190 ... P56817 20043700 MOAD: Kd=32uM
    BindingDB: Kd=32nM
    94236 3kmz:A (2.1) BS01 peptide ? GO:0003677 ... P10276 20543827
    94237 3kmz:A (2.1) BS02 peptide ? GO:0003677 ... P10276 20543827
    94238 3kmz:A (2.1) BS03 EQO ? GO:0003677 ... P10276 20543827 BindingDB: IC50=114nM
    94239 3kmz:B (2.1) BS01 peptide ? GO:0003677 ... P10276 20543827
    94240 3kmz:B (2.1) BS02 peptide ? GO:0003677 ... P10276 20543827
    94241 3kmz:B (2.1) BS03 EQO ? GO:0003677 ... P10276 20543827 BindingDB: IC50=114nM
    94242 3kn0:A (1.9) BS01 3TO 3.4.23.46 GO:0004190 ... P56817 20043700 MOAD: Kd~100uM
    PDBbind: -logKd/Ki=3.60, IC50=250uM
    BindingDB: IC50=250nM
    94243 3kn0:B (1.9) BS01 3TO 3.4.23.46 GO:0004190 ... P56817 20043700 MOAD: Kd~100uM
    BindingDB: IC50=250nM
    94244 3kn7:A (1.71) BS01 PO4 ? GO:0006826 ... P35755 20799927
    94245 3kn8:A (1.89) BS01 PO4 ? GO:0006826 ... P35755 20799927
    94246 3knd:A (2.151) BS01 peptide ? GO:0005737 ... P52293 20335181
    94247 3kne:A (1.35) BS01 ZN 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 21506176
    94248 3kne:A (1.35) BS02 DAW 4.2.1.1
    4.2.1.69    		 GO:0002009 ... P00918 21506176
    94249 3knr:A (1.71) BS01 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94250 3knr:A (1.71) BS02 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94251 3knr:B (1.71) BS01 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94252 3knr:C (1.71) BS01 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94253 3knr:C (1.71) BS02 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94254 3knr:D (1.71) BS01 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94255 3kns:A (1.58) BS01 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94256 3kns:A (1.58) BS02 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94257 3kns:B (1.58) BS01 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94258 3kns:B (1.58) BS02 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94259 3kns:C (1.58) BS01 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94260 3kns:C (1.58) BS02 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94261 3kns:D (1.58) BS01 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94262 3kns:D (1.58) BS02 ZN 3.5.2.6 GO:0008270 ... P04190 22729148
    94263 3ko0:A (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94264 3ko0:A (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94265 3ko0:A (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94266 3ko0:A (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94267 3ko0:A (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94268 3ko0:A (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94269 3ko0:A (2.3) BS07 TFP ? GO:0001837 ... P26447 20421509
    94270 3ko0:B (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94271 3ko0:B (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94272 3ko0:B (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94273 3ko0:B (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94274 3ko0:B (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94275 3ko0:B (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94276 3ko0:C (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94277 3ko0:C (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94278 3ko0:C (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94279 3ko0:C (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94280 3ko0:C (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94281 3ko0:C (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94282 3ko0:C (2.3) BS07 TFP ? GO:0001837 ... P26447 20421509
    94283 3ko0:D (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94284 3ko0:D (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94285 3ko0:D (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94286 3ko0:D (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94287 3ko0:D (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94288 3ko0:D (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94289 3ko0:D (2.3) BS07 TFP ? GO:0001837 ... P26447 20421509
    94290 3ko0:E (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94291 3ko0:E (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94292 3ko0:E (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94293 3ko0:E (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94294 3ko0:E (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94295 3ko0:E (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94296 3ko0:E (2.3) BS07 TFP ? GO:0001837 ... P26447 20421509
    94297 3ko0:F (2.3) BS01 CA ? GO:0001837 ... P26447 20421509
    94298 3ko0:F (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94299 3ko0:F (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94300 3ko0:F (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94301 3ko0:F (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94302 3ko0:G (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94303 3ko0:G (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94304 3ko0:G (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94305 3ko0:G (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94306 3ko0:H (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94307 3ko0:H (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94308 3ko0:H (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94309 3ko0:H (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94310 3ko0:H (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94311 3ko0:I (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94312 3ko0:I (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94313 3ko0:I (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94314 3ko0:I (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94315 3ko0:I (2.3) BS05 CA ? GO:0001837 ... P26447 20421509
    94316 3ko0:I (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94317 3ko0:J (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94318 3ko0:J (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94319 3ko0:J (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94320 3ko0:J (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94321 3ko0:J (2.3) BS05 CA ? GO:0001837 ... P26447 20421509
    94322 3ko0:J (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94323 3ko0:K (2.3) BS01 CA ? GO:0001837 ... P26447 20421509
    94324 3ko0:K (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94325 3ko0:K (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94326 3ko0:K (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94327 3ko0:K (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94328 3ko0:L (2.3) BS01 CA ? GO:0001837 ... P26447 20421509
    94329 3ko0:L (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94330 3ko0:L (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94331 3ko0:L (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94332 3ko0:L (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94333 3ko0:L (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94334 3ko0:M (2.3) BS01 CA ? GO:0001837 ... P26447 20421509
    94335 3ko0:M (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94336 3ko0:M (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94337 3ko0:M (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94338 3ko0:N (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94339 3ko0:N (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94340 3ko0:N (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94341 3ko0:N (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94342 3ko0:N (2.3) BS05 CA ? GO:0001837 ... P26447 20421509
    94343 3ko0:N (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94344 3ko0:N (2.3) BS07 TFP ? GO:0001837 ... P26447 20421509
    94345 3ko0:O (2.3) BS01 CA ? GO:0001837 ... P26447 20421509
    94346 3ko0:O (2.3) BS02 CA ? GO:0001837 ... P26447 20421509
    94347 3ko0:O (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94348 3ko0:O (2.3) BS04 TFP ? GO:0001837 ... P26447 20421509
    94349 3ko0:O (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94350 3ko0:O (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94351 3ko0:P (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94352 3ko0:P (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94353 3ko0:P (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94354 3ko0:P (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94355 3ko0:P (2.3) BS05 CA ? GO:0001837 ... P26447 20421509
    94356 3ko0:P (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94357 3ko0:Q (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94358 3ko0:Q (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94359 3ko0:Q (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94360 3ko0:Q (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94361 3ko0:Q (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94362 3ko0:Q (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94363 3ko0:R (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94364 3ko0:R (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94365 3ko0:R (2.3) BS03 CA ? GO:0001837 ... P26447 20421509
    94366 3ko0:R (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94367 3ko0:R (2.3) BS05 TFP ? GO:0001837 ... P26447 20421509
    94368 3ko0:R (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94369 3ko0:S (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94370 3ko0:S (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94371 3ko0:S (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94372 3ko0:S (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94373 3ko0:S (2.3) BS05 CA ? GO:0001837 ... P26447 20421509
    94374 3ko0:S (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94375 3ko0:T (2.3) BS01 TFP ? GO:0001837 ... P26447 20421509
    94376 3ko0:T (2.3) BS02 TFP ? GO:0001837 ... P26447 20421509
    94377 3ko0:T (2.3) BS03 TFP ? GO:0001837 ... P26447 20421509
    94378 3ko0:T (2.3) BS04 CA ? GO:0001837 ... P26447 20421509
    94379 3ko0:T (2.3) BS05 CA ? GO:0001837 ... P26447 20421509
    94380 3ko0:T (2.3) BS06 TFP ? GO:0001837 ... P26447 20421509
    94381 3ko2:A (2.9) BS01 dna ? GO:0004519 ... C0JWR6 20435674
    94382 3ko2:A (2.9) BS02 dna ? GO:0004519 ... C0JWR6 20435674
    94383 3ko2:A (2.9) BS03 CA ? GO:0004519 ... C0JWR6 20435674
    94384 3ko2:B (2.9) BS01 dna ? GO:0004519 ... C0JWR6 20435674
    94385 3ko2:B (2.9) BS02 dna ? GO:0004519 ... C0JWR6 20435674
    94386 3ko2:F (2.9) BS01 dna ? GO:0004519 ... C0JWR6 20435674
    94387 3ko2:F (2.9) BS02 dna ? GO:0004519 ... C0JWR6 20435674
    94388 3ko2:G (2.9) BS01 dna ? GO:0004519 ... C0JWR6 20435674
    94389 3ko2:G (2.9) BS02 dna ? GO:0004519 ... C0JWR6 20435674
    94390 3ko3:C (2.8) BS01 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94391 3ko4:B (2.7) BS01 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94392 3ko4:C (2.7) BS01 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94393 3ko4:C (2.7) BS02 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94394 3ko4:D (2.7) BS01 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94395 3ko4:D (2.7) BS02 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94396 3ko5:A (2.09) BS01 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94397 3ko5:B (2.09) BS01 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94398 3ko5:C (2.09) BS01 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94399 3ko5:C (2.09) BS02 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    94400 3ko5:D (2.09) BS01 ADP 3.1.1.96 GO:0000049 ... Q8IIS0 20007323
    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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