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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.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    28801 1r1o:B (2.8) BS03 SDC 3.5.3.1 GO:0000050 ... P07824 14570477
    28802 1r1o:C (2.8) BS01 MN 3.5.3.1 GO:0000050 ... P07824 14570477
    28803 1r1o:C (2.8) BS02 MN 3.5.3.1 GO:0000050 ... P07824 14570477
    28804 1r1o:C (2.8) BS03 SDC 3.5.3.1 GO:0000050 ... P07824 14570477
    28805 1r1r:A (2.9) BS01 peptide 1.17.4.1 GO:0004748 ... P00452 9309223
    28806 1r1r:A (2.9) BS02 peptide 1.17.4.1 GO:0004748 ... P00452 9309223
    28807 1r1r:B (2.9) BS01 peptide 1.17.4.1 GO:0004748 ... P00452 9309223
    28808 1r1r:C (2.9) BS01 peptide 1.17.4.1 GO:0004748 ... P00452 9309223
    28809 1r1r:C (2.9) BS02 peptide 1.17.4.1 GO:0004748 ... P00452 9309223
    28810 1r1x:A (2.15) BS01 HEM ? GO:0004601 ... P69905 15495251
    28811 1r1x:B (2.15) BS01 HEM ? GO:0004601 ... P68871 15495251
    28812 1r1y:A (1.8) BS01 HEM ? GO:0004601 ... P69905 15495251
    28813 1r1y:B (1.8) BS01 HEM ? GO:0004601 ... P68871 15495251
    28814 1r1y:C (1.8) BS01 HEM ? GO:0004601 ... P69905 15495251
    28815 1r1y:D (1.8) BS01 HEM ? GO:0004601 ... P68871 15495251
    28816 1r1z:A (2.4) BS01 CA ? GO:0016020 ... Q62902 14643651
    28817 1r1z:A (2.4) BS02 CA ? GO:0016020 ... Q62902 14643651
    28818 1r1z:B (2.4) BS01 CA ? GO:0016020 ... Q62902 14643651
    28819 1r1z:B (2.4) BS02 CA ? GO:0016020 ... Q62902 14643651
    28820 1r1z:C (2.4) BS01 CA ? GO:0016020 ... Q62902 14643651
    28821 1r1z:C (2.4) BS02 CA ? GO:0016020 ... Q62902 14643651
    28822 1r1z:D (2.4) BS01 CA ? GO:0016020 ... Q62902 14643651
    28823 1r1z:D (2.4) BS02 CA ? GO:0016020 ... Q62902 14643651
    28824 1r20:A (3.0) BS01 EPH ? GO:0003677 ... Q7SIF6 14595375
    28825 1r20:D (3.0) BS01 HWG ? GO:0003677 ... O18473 14595375
    28826 1r27:A (2.0) BS01 MO 1.7.5.1 GO:0005515 ... P09152 14725769
    28827 1r27:A (2.0) BS02 SF4 1.7.5.1 GO:0005515 ... P09152 14725769
    28828 1r27:A (2.0) BS03 MGD 1.7.5.1 GO:0005515 ... P09152 14725769
    28829 1r27:A (2.0) BS04 MGD 1.7.5.1 GO:0005515 ... P09152 14725769
    28830 1r27:B (2.0) BS01 F3S 1.7.5.1 GO:0005515 ... P11349 14725769
    28831 1r27:B (2.0) BS02 SF4 1.7.5.1 GO:0005515 ... P11349 14725769
    28832 1r27:B (2.0) BS03 SF4 1.7.5.1 GO:0005515 ... P11349 14725769
    28833 1r27:B (2.0) BS04 SF4 1.7.5.1 GO:0005515 ... P11349 14725769
    28834 1r27:C (2.0) BS01 MO 1.7.5.1 GO:0005515 ... P09152 14725769
    28835 1r27:C (2.0) BS02 SF4 1.7.5.1 GO:0005515 ... P09152 14725769
    28836 1r27:C (2.0) BS03 MGD 1.7.5.1 GO:0005515 ... P09152 14725769
    28837 1r27:C (2.0) BS04 MGD 1.7.5.1 GO:0005515 ... P09152 14725769
    28838 1r27:D (2.0) BS01 F3S 1.7.5.1 GO:0005515 ... P11349 14725769
    28839 1r27:D (2.0) BS02 SF4 1.7.5.1 GO:0005515 ... P11349 14725769
    28840 1r27:D (2.0) BS03 SF4 1.7.5.1 GO:0005515 ... P11349 14725769
    28841 1r27:D (2.0) BS04 SF4 1.7.5.1 GO:0005515 ... P11349 14725769
    28842 1r2c:C (2.86) BS01 HEM ? GO:0005506 ... P07173 15073325
    28843 1r2c:C (2.86) BS02 HEM ? GO:0005506 ... P07173 15073325
    28844 1r2c:C (2.86) BS03 HEM ? GO:0005506 ... P07173 15073325
    28845 1r2c:C (2.86) BS04 HEM ? GO:0005506 ... P07173 15073325
    28846 1r2c:L (2.86) BS01 BCB ? GO:0009772 ... P06009 15073325
    28847 1r2c:L (2.86) BS02 BCB ? GO:0009772 ... P06009 15073325
    28848 1r2c:L (2.86) BS03 BPB ? GO:0009772 ... P06009 15073325
    28849 1r2c:L (2.86) BS04 UQ2 ? GO:0009772 ... P06009 15073325
    28850 1r2c:L (2.86) BS05 FE2 ? GO:0009772 ... P06009 15073325
    28851 1r2c:L (2.86) BS06 BCB ? GO:0009772 ... P06009 15073325
    28852 1r2c:L (2.86) BS07 BPB ? GO:0009772 ... P06009 15073325
    28853 1r2c:L (2.86) BS08 MQ7 ? GO:0009772 ... P06009 15073325
    28854 1r2c:M (2.86) BS01 BCB ? GO:0009772 ... P06010 15073325
    28855 1r2c:M (2.86) BS02 BCB ? GO:0009772 ... P06010 15073325
    28856 1r2c:M (2.86) BS03 BPB ? GO:0009772 ... P06010 15073325
    28857 1r2c:M (2.86) BS04 FE2 ? GO:0009772 ... P06010 15073325
    28858 1r2c:M (2.86) BS05 BCB ? GO:0009772 ... P06010 15073325
    28859 1r2c:M (2.86) BS06 BCB ? GO:0009772 ... P06010 15073325
    28860 1r2c:M (2.86) BS07 BPB ? GO:0009772 ... P06010 15073325
    28861 1r2c:M (2.86) BS08 MQ7 ? GO:0009772 ... P06010 15073325
    28862 1r2c:M (2.86) BS09 NS5 ? GO:0009772 ... P06010 15073325
    28863 1r2f:A (2.1) BS01 FE 1.17.4.1 GO:0004748 ... P17424 9748343
    28864 1r2f:A (2.1) BS02 FE 1.17.4.1 GO:0004748 ... P17424 9748343
    28865 1r2f:B (2.1) BS01 FE 1.17.4.1 GO:0004748 ... P17424 9748343
    28866 1r2f:B (2.1) BS02 FE 1.17.4.1 GO:0004748 ... P17424 9748343
    28867 1r2m:A (1.0) BS01 MN ? GO:0005576 ... P79073 14555650
    28868 1r2n:A (-1.00) BS01 RET ? GO:0005216 ... P02945 12119389
    28869 1r2r:B (1.5) BS01 MG 4.2.3.3
    5.3.1.1
    GO:0004807 ... P00939 14643664
    28870 1r33:A (1.8) BS01 ZN 3.2.1.114 GO:0000139 ... Q24451 N/A
    28871 1r33:A (1.8) BS02 LKA 3.2.1.114 GO:0000139 ... Q24451 N/A MOAD: ic50=0.07mM
    28872 1r34:A (1.95) BS01 ZN 3.2.1.114 GO:0000139 ... Q24451 N/A
    28873 1r34:A (1.95) BS02 LKS 3.2.1.114 GO:0000139 ... Q24451 N/A MOAD: ic50=0.9mM
    28874 1r38:A (2.2) BS01 NAP 1.1.1.307 GO:0004032 ... O74237 15109252
    28875 1r38:B (2.2) BS01 NAP 1.1.1.307 GO:0004032 ... O74237 15109252
    28876 1r38:C (2.2) BS01 NAP 1.1.1.307 GO:0004032 ... O74237 15109252
    28877 1r38:D (2.2) BS01 NAP 1.1.1.307 GO:0004032 ... O74237 15109252
    28878 1r3c:A (2.0) BS01 MG 2.7.11.24 GO:0000077 ... Q16539 14726206
    28879 1r3q:A (1.7) BS01 1CP 4.1.1.37 GO:0004853 ... P06132 14633982
    28880 1r3s:A (1.65) BS01 1CP 4.1.1.37 GO:0004853 ... P06132 14633982
    28881 1r3t:A (1.7) BS01 CP3 4.1.1.37 GO:0004853 ... P06132 14633982
    28882 1r3u:A (2.5) BS01 MG 2.4.2.8 GO:0000166 ... Q8R7L0 N/A
    28883 1r3u:B (2.5) BS01 MG 2.4.2.8 GO:0000166 ... Q8R7L0 N/A
    28884 1r3v:A (1.9) BS01 1CP 4.1.1.37 GO:0004853 ... P06132 14633982
    28885 1r3w:A (1.7) BS01 CP3 4.1.1.37 GO:0004853 ... P06132 14633982
    28886 1r3y:A (1.755) BS01 CP3 4.1.1.37 GO:0004853 ... P06132 14633982
    28887 1r42:A (2.2) BS01 ZN 3.4.17.-
    3.4.17.23
    GO:0006508 ... Q9BYF1 14754895
    28888 1r47:A (3.45) BS01 GAL 3.2.1.22 GO:0003824 ... P06280 15003450
    28889 1r47:B (3.45) BS01 GAL 3.2.1.22 GO:0003824 ... P06280 15003450
    28890 1r49:A (3.13) BS01 dna 5.6.2.1 GO:0003677 ... P11387 14594810
    28891 1r49:A (3.13) BS02 dna 5.6.2.1 GO:0003677 ... P11387 14594810
    28892 1r4a:A (2.3) BS01 MG ? GO:0000139 ... P61212 14718928
    28893 1r4a:A (2.3) BS02 GNP ? GO:0000139 ... P61212 14718928
    28894 1r4a:B (2.3) BS01 MG ? GO:0000139 ... P61212 14718928
    28895 1r4a:B (2.3) BS02 GNP ? GO:0000139 ... P61212 14718928
    28896 1r4a:C (2.3) BS01 MG ? GO:0000139 ... P61212 14718928
    28897 1r4a:C (2.3) BS02 GNP ? GO:0000139 ... P61212 14718928
    28898 1r4a:D (2.3) BS01 MG ? GO:0000139 ... P61212 14718928
    28899 1r4a:D (2.3) BS02 GNP ? GO:0000139 ... P61212 14718928
    28900 1r4l:A (3.0) BS01 ZN 3.4.17.-
    3.4.17.23
    GO:0006508 ... Q9BYF1 14754895
    28901 1r4l:A (3.0) BS02 XX5 3.4.17.-
    3.4.17.23
    GO:0006508 ... Q9BYF1 14754895 BindingDB: IC50=0.44nM
    28902 1r4m:F (3.0) BS01 ZN 6.2.1.64 GO:0000278 ... Q8TBC4 14690597
    28903 1r4m:H (3.0) BS01 ZN 6.2.1.64 GO:0000278 ... Q8TBC4 14690597
    28904 1r4n:B (3.6) BS01 ATP 6.2.1.64 GO:0000278 ... Q8TBC4 14690597
    28905 1r4n:D (3.6) BS01 ATP 6.2.1.64 GO:0000278 ... Q8TBC4 14690597
    28906 1r4n:F (3.6) BS01 ZN 6.2.1.64 GO:0000278 ... Q8TBC4 14690597
    28907 1r4n:F (3.6) BS02 ATP 6.2.1.64 GO:0000278 ... Q8TBC4 14690597
    28908 1r4n:H (3.6) BS01 ZN 6.2.1.64 GO:0000278 ... Q8TBC4 14690597
    28909 1r4n:H (3.6) BS02 ATP 6.2.1.64 GO:0000278 ... Q8TBC4 14690597
    28910 1r4p:A (1.77) BS01 FMT 3.2.2.22 GO:0005576 ... P09385 15075327
    28911 1r4p:A (1.77) BS02 FMT 3.2.2.22 GO:0005576 ... P09385 15075327
    28912 1r4p:A (1.77) BS03 FMT 3.2.2.22 GO:0005576 ... P09385 15075327
    28913 1r4p:A (1.77) BS04 FMT 3.2.2.22 GO:0005576 ... P09385 15075327
    28914 1r4p:A (1.77) BS05 FMT 3.2.2.22 GO:0005576 ... P09385 15075327
    28915 1r4p:A (1.77) BS06 FMT 3.2.2.22 GO:0005576 ... P09385 15075327
    28916 1r4p:B (1.77) BS01 1PS ? GO:0005576 ... P09386 15075327
    28917 1r4p:C (1.77) BS01 FMT ? GO:0005576 ... P09386 15075327
    28918 1r4p:C (1.77) BS02 1PS ? GO:0005576 ... P09386 15075327
    28919 1r4p:C (1.77) BS03 FMT ? GO:0005576 ... P09386 15075327
    28920 1r4p:D (1.77) BS01 1PS ? GO:0005576 ... P09386 15075327
    28921 1r4p:D (1.77) BS02 FMT ? GO:0005576 ... P09386 15075327
    28922 1r4p:E (1.77) BS01 FMT ? GO:0005576 ... P09386 15075327
    28923 1r4p:E (1.77) BS02 FMT ? GO:0005576 ... P09386 15075327
    28924 1r4p:F (1.77) BS01 1PS ? GO:0005576 ... P09386 15075327
    28925 1r4p:F (1.77) BS02 FMT ? GO:0005576 ... P09386 15075327
    28926 1r4s:A (1.8) BS01 CYS 1.7.3.3 GO:0004846 ... Q00511 14993669
    28927 1r4s:A (1.8) BS02 MUA 1.7.3.3 GO:0004846 ... Q00511 14993669
    28928 1r4u:A (1.65) BS01 OXC 1.7.3.3 GO:0004846 ... Q00511 14993669
    28929 1r4w:A (2.5) BS01 GSH 2.5.1.18 GO:0004364 ... P24473 14717589 MOAD: Kd=90uM
    PDBbind: -logKd/Ki=4.05, Kd=90uM
    28930 1r4w:B (2.5) BS01 GSH 2.5.1.18 GO:0004364 ... P24473 14717589 MOAD: Kd=90uM
    PDBbind: -logKd/Ki=4.05, Kd=90uM
    28931 1r4w:C (2.5) BS01 GSH 2.5.1.18 GO:0004364 ... P24473 14717589 MOAD: Kd=90uM
    28932 1r4w:C (2.5) BS02 GSH 2.5.1.18 GO:0004364 ... P24473 14717589 MOAD: Kd=90uM
    28933 1r4w:D (2.5) BS01 GSH 2.5.1.18 GO:0004364 ... P24473 14717589 MOAD: Kd=90uM
    28934 1r4w:D (2.5) BS02 GSH 2.5.1.18 GO:0004364 ... P24473 14717589 MOAD: Kd=90uM
    28935 1r4z:A (1.8) BS01 RIL 3.1.1.3 GO:0004806 ... P37957 16342303
    28936 1r4z:B (1.8) BS01 RIL 3.1.1.3 GO:0004806 ... P37957 16342303
    28937 1r50:A (1.45) BS01 SIL 3.1.1.3 GO:0004806 ... P37957 16342303
    28938 1r50:B (1.45) BS01 SIL 3.1.1.3 GO:0004806 ... P37957 16342303
    28939 1r51:A (1.75) BS01 AZA 1.7.3.3 GO:0004846 ... Q00511 14993669
    28940 1r5c:A (2.1) BS01 CPA 4.6.1.18 GO:0003676 ... P00669 15048772
    28941 1r5c:B (2.1) BS01 CPA 4.6.1.18 GO:0003676 ... P00669 15048772
    28942 1r5i:A (2.6) BS01 peptide ? GO:0006955 ... P01903 14962388
    28943 1r5i:B (2.6) BS01 peptide ? GO:0006955 ... P01911 14962388
    28944 1r5i:E (2.6) BS01 peptide ? GO:0006955 ... P01903 14962388
    28945 1r5i:F (2.6) BS01 peptide ? GO:0006955 ... P01911 14962388
    28946 1r5l:A (1.5) BS01 VIV ? GO:0001890 ... P49638 14657365 BindingDB: Kd=2.4nM
    28947 1r5t:A (2.0) BS01 ZN 3.5.4.5 GO:0003824 ... Q06549 15148397
    28948 1r5t:B (2.0) BS01 ZN 3.5.4.5 GO:0003824 ... Q06549 15148397
    28949 1r5t:C (2.0) BS01 ZN 3.5.4.5 GO:0003824 ... Q06549 15148397
    28950 1r5t:D (2.0) BS01 ZN 3.5.4.5 GO:0003824 ... Q06549 15148397
    28951 1r5u:A (4.5) BS01 ZN 2.7.7.6 GO:0000428 ... P04050 14963322
    28952 1r5u:A (4.5) BS02 MG 2.7.7.6 GO:0000428 ... P04050 14963322
    28953 1r5u:B (4.5) BS01 ZN 2.7.7.6 GO:0000428 ... P08518 14963322
    28954 1r5u:C (4.5) BS01 ZN 2.7.7.6 GO:0000428 ... P16370 14963322
    28955 1r5u:I (4.5) BS01 ZN 2.7.7.6 GO:0000428 ... P27999 14963322
    28956 1r5u:I (4.5) BS02 ZN 2.7.7.6 GO:0000428 ... P27999 14963322
    28957 1r5u:J (4.5) BS01 ZN 2.7.7.6 GO:0000428 ... P22139 14963322
    28958 1r5u:L (4.5) BS01 ZN 2.7.7.6 GO:0000428 ... P40422 14963322
    28959 1r5v:A (2.5) BS01 peptide ? GO:0006955 ... P04224 14690592
    28960 1r5v:B (2.5) BS01 peptide ? GO:0006955 ... P18468 14690592
    28961 1r5v:C (2.5) BS01 peptide ? GO:0006955 ... P04224 14690592
    28962 1r5v:D (2.5) BS01 peptide ? GO:0006955 ... P18468 14690592
    28963 1r5w:A (2.9) BS01 peptide ? GO:0006955 ... P04224 14690592
    28964 1r5w:A (2.9) BS02 peptide ? GO:0006955 ... P04224 14690592
    28965 1r5w:B (2.9) BS01 peptide ? GO:0006955 ... Q31164 14690592
    28966 1r5w:C (2.9) BS01 peptide ? GO:0006955 ... P04224 14690592
    28967 1r5w:C (2.9) BS02 peptide ? GO:0006955 ... P04224 14690592
    28968 1r5w:D (2.9) BS01 peptide ? GO:0006955 ... Q31164 14690592
    28969 1r5y:A (1.2) BS01 ZN 2.4.2.29 GO:0002099 ... P28720 15050823
    28970 1r5y:A (1.2) BS02 DQU 2.4.2.29 GO:0002099 ... P28720 15050823 MOAD: Ki=0.35uM
    PDBbind: -logKd/Ki=6.46, Ki=0.35uM
    28971 1r65:A (1.95) BS01 FE2 1.17.4.1 GO:0004748 ... P69924 14677973
    28972 1r65:A (1.95) BS02 FE2 1.17.4.1 GO:0004748 ... P69924 14677973
    28973 1r65:B (1.95) BS01 FE2 1.17.4.1 GO:0004748 ... P69924 14677973
    28974 1r65:B (1.95) BS02 FE2 1.17.4.1 GO:0004748 ... P69924 14677973
    28975 1r67:A (1.77) BS01 MG 5.3.3.2 GO:0000287 ... Q46822 16617181
    28976 1r6b:X (2.25) BS01 MG ? GO:0004176 ... P0ABH9 15037248
    28977 1r6b:X (2.25) BS02 ADP ? GO:0004176 ... P0ABH9 15037248
    28978 1r6b:X (2.25) BS03 ADP ? GO:0004176 ... P0ABH9 15037248
    28979 1r6t:A (2.1) BS01 TYM 6.1.1.2 GO:0000166 ... P23381 14671330
    28980 1r6u:A (2.0) BS01 TYM 6.1.1.2 GO:0000166 ... P23381 17637340
    28981 1r6v:A (1.7) BS01 CA 3.4.21.- GO:0004252 ... Q93LQ6 14687574
    28982 1r6z:A (2.8) BS01 GLC ? GO:0003723 ... P0AEX9
    Q9VUQ5
    14625589
    28983 1r6z:A (2.8) BS02 GLC ? GO:0003723 ... P0AEX9
    Q9VUQ5
    14625589
    28984 1r6z:P (2.8) BS01 GLC ? GO:0003723 ... P0AEX9
    Q9VUQ5
    14625589
    28985 1r6z:P (2.8) BS02 GLC ? GO:0003723 ... P0AEX9
    Q9VUQ5
    14625589
    28986 1r6z:Z (2.8) BS01 GLC ? GO:0003723 ... P0AEX9
    Q9VUQ5
    14625589
    28987 1r6z:Z (2.8) BS02 GLC ? GO:0003723 ... P0AEX9
    Q9VUQ5
    14625589
    28988 1r78:A (2.0) BS01 FMD 2.7.11.22 GO:0000082 ... P24941 15012993 MOAD: ic50=3nM
    PDBbind: -logKd/Ki=8.52, IC50=3nM
    BindingDB: IC50=3nM
    28989 1r7m:A (2.25) BS01 dna 3.1.-.- GO:0004519 ... P03882 14636596
    28990 1r7m:A (2.25) BS02 dna 3.1.-.- GO:0004519 ... P03882 14636596
    28991 1r7m:A (2.25) BS03 CA 3.1.-.- GO:0004519 ... P03882 14636596
    28992 1r7m:A (2.25) BS04 CA 3.1.-.- GO:0004519 ... P03882 14636596
    28993 1r7m:B (2.25) BS01 dna 3.1.-.- GO:0004519 ... P03882 14636596
    28994 1r7m:B (2.25) BS02 dna 3.1.-.- GO:0004519 ... P03882 14636596
    28995 1r7m:B (2.25) BS03 CA 3.1.-.- GO:0004519 ... P03882 14636596
    28996 1r7m:B (2.25) BS04 CA 3.1.-.- GO:0004519 ... P03882 14636596
    28997 1r7r:A (3.6) BS01 ADP 3.6.4.6 GO:0000502 ... Q01853 14643202
    28998 1r7s:A (1.91) BS01 FES ? GO:0005515 ... P00259 15103126
    28999 1r7s:B (1.91) BS01 FES ? GO:0005515 ... P00259 15103126
    29000 1r7s:C (1.91) BS01 FES ? GO:0005515 ... P00259 15103126

    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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