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BioLiP
Download all results in tab-seperated text for 713946 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
    25801 1m8p:A (2.6) BS01 PPS 2.7.7.4 GO:0000103 ... Q12650 12426581
    25802 1m8p:B (2.6) BS01 PPS 2.7.7.4 GO:0000103 ... Q12650 12426581
    25803 1m8p:C (2.6) BS01 PPS 2.7.7.4 GO:0000103 ... Q12650 12426581
    25804 1m8r:A (1.9) BS01 CD 3.1.1.4 GO:0004623 ... O42191 12504079
    25805 1m8s:A (1.9) BS01 CD 3.1.1.4 GO:0004623 ... O42191 12504079
    25806 1m8t:A (2.1) BS01 CA 3.1.1.4 GO:0004623 ... Q9DF33 12925787
    25807 1m8t:B (2.1) BS01 CA 3.1.1.4 GO:0004623 ... Q9DF33 12925787
    25808 1m8t:C (2.1) BS01 CA 3.1.1.4 GO:0004623 ... Q9DF33 12925787
    25809 1m8t:D (2.1) BS01 CA 3.1.1.4 GO:0004623 ... Q9DF33 12925787
    25810 1m8t:E (2.1) BS01 CA 3.1.1.4 GO:0004623 ... Q9DF33 12925787
    25811 1m8t:F (2.1) BS01 CA 3.1.1.4 GO:0004623 ... Q9DF33 12925787
    25812 1m8v:A (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25813 1m8v:A (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25814 1m8v:B (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25815 1m8v:B (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25816 1m8v:C (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25817 1m8v:C (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25818 1m8v:D (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25819 1m8v:D (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25820 1m8v:E (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25821 1m8v:E (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25822 1m8v:F (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25823 1m8v:F (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25824 1m8v:G (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25825 1m8v:G (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25826 1m8v:H (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25827 1m8v:H (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25828 1m8v:I (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25829 1m8v:I (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25830 1m8v:J (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25831 1m8v:J (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25832 1m8v:K (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25833 1m8v:K (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25834 1m8v:L (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25835 1m8v:L (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25836 1m8v:M (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25837 1m8v:M (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25838 1m8v:M (2.6) BS03 U ? GO:0000398 ... Q9V0Y8 12409299
    25839 1m8v:N (2.6) BS01 rna ? GO:0000398 ... Q9V0Y8 12409299
    25840 1m8v:N (2.6) BS02 U ? GO:0000398 ... Q9V0Y8 12409299
    25841 1m90:1 (2.8) BS01 rna ? GO:0003735 ... P60619 12185246
    25842 1m90:2 (2.8) BS01 rna ? GO:0003723 ... P32410 12185246
    25843 1m90:3 (2.8) BS01 rna ? GO:0003735 ... P22452 12185246
    25844 1m90:4 (2.8) BS01 rna ? GO:0000049 ... P32411 12185246
    25845 1m90:4 (2.8) BS02 MG ? GO:0000049 ... P32411 12185246
    25846 1m90:C (2.8) BS01 rna ? GO:0002181 ... P20276 12185246
    25847 1m90:D (2.8) BS01 rna ? GO:0003723 ... P20279 12185246
    25848 1m90:E (2.8) BS01 rna ? GO:0003723 ... P12735 12185246
    25849 1m90:F (2.8) BS01 rna ? GO:0000049 ... P14124 12185246
    25850 1m90:F (2.8) BS02 rna ? GO:0000049 ... P14124 12185246
    25851 1m90:G (2.8) BS01 rna ? GO:0002181 ... P14135 12185246
    25852 1m90:H (2.8) BS01 rna ? GO:0001682 ... P12743 12185246
    25853 1m90:J (2.8) BS01 rna ? GO:0000027 ... P60617 12185246
    25854 1m90:K (2.8) BS01 rna ? GO:0003729 ... P29198 12185246
    25855 1m90:L (2.8) BS01 rna ? GO:0003735 ... P22450 12185246
    25856 1m90:M (2.8) BS01 rna ? GO:0003735 ... P12737 12185246
    25857 1m90:N (2.8) BS01 rna ? GO:0002181 ... P60618 12185246
    25858 1m90:O (2.8) BS01 rna ? GO:0000027 ... P14123 12185246
    25859 1m90:O (2.8) BS02 rna ? GO:0000027 ... P14123 12185246
    25860 1m90:P (2.8) BS01 rna ? GO:0003723 ... P12733 12185246
    25861 1m90:Q (2.8) BS01 rna ? GO:0003723 ... P14119 12185246
    25862 1m90:R (2.8) BS01 rna ? GO:0003735 ... P12734 12185246
    25863 1m90:R (2.8) BS02 rna ? GO:0003735 ... P12734 12185246
    25864 1m90:S (2.8) BS01 rna ? GO:0002181 ... P10970 12185246
    25865 1m90:T (2.8) BS01 rna ? GO:0000027 ... P12732 12185246
    25866 1m90:U (2.8) BS01 rna ? GO:0002181 ... P10972 12185246
    25867 1m90:U (2.8) BS02 MG ? GO:0002181 ... P10972 12185246
    25868 1m90:V (2.8) BS01 rna ? GO:0003735 ... P14116 12185246
    25869 1m90:W (2.8) BS01 rna ? GO:0003735 ... P10971 12185246
    25870 1m90:X (2.8) BS01 rna ? GO:0000463 ... P14121 12185246
    25871 1m90:X (2.8) BS02 rna ? GO:0000463 ... P14121 12185246
    25872 1m90:Y (2.8) BS01 rna ? GO:0002181 ... P18138 12185246
    25873 1m90:Z (2.8) BS01 rna ? GO:0000166 ... P12736 12185246
    25874 1m90:Z (2.8) BS02 MG ? GO:0000166 ... P12736 12185246
    25875 1m99:A (2.3) BS01 GTS 2.5.1.18 GO:0004364 ... P08515 12596270
    25876 1m9a:A (2.1) BS01 GTX 2.5.1.18 GO:0004364 ... P08515 12596270
    25877 1m9b:A (2.6) BS01 IBG 2.5.1.18 GO:0004364 ... P08515 12596270
    25878 1m9h:A (2.0) BS01 NAD 1.1.1.346 GO:0005737 ... P06632 14718658
    25879 1m9i:A (2.65) BS01 CA ? GO:0001786 ... P08133 12534274
    25880 1m9i:A (2.65) BS02 CA ? GO:0001786 ... P08133 12534274
    25881 1m9i:A (2.65) BS03 CA ? GO:0001786 ... P08133 12534274
    25882 1m9i:A (2.65) BS04 CA ? GO:0001786 ... P08133 12534274
    25883 1m9i:A (2.65) BS05 CA ? GO:0001786 ... P08133 12534274
    25884 1m9j:A (2.43) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25885 1m9j:A (2.43) BS02 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25886 1m9j:A (2.43) BS03 CLW 1.14.13.39 GO:0004517 ... P29474 12437348 MOAD: Kd~0.6uM
    BindingDB: IC50=8700nM
    25887 1m9j:B (2.43) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25888 1m9j:B (2.43) BS02 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25889 1m9j:B (2.43) BS03 CLW 1.14.13.39 GO:0004517 ... P29474 12437348 MOAD: Kd~0.6uM
    BindingDB: IC50=8700nM
    25890 1m9k:A (2.01) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25891 1m9k:A (2.01) BS02 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25892 1m9k:A (2.01) BS03 7NI 1.14.13.39 GO:0004517 ... P29474 12437348 MOAD: Kd~250uM
    BindingDB: IC50=2500nM
    25893 1m9k:B (2.01) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25894 1m9k:B (2.01) BS02 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25895 1m9k:B (2.01) BS03 7NI 1.14.13.39 GO:0004517 ... P29474 12437348 MOAD: Kd~250uM
    BindingDB: IC50=2500nM
    25896 1m9m:A (1.96) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25897 1m9m:A (1.96) BS02 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25898 1m9m:A (1.96) BS03 6NI 1.14.13.39 GO:0004517 ... P29474 12437348
    25899 1m9m:B (1.96) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25900 1m9m:B (1.96) BS02 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25901 1m9m:B (1.96) BS03 6NI 1.14.13.39 GO:0004517 ... P29474 12437348
    25902 1m9n:A (1.93) BS01 AMZ 2.1.2.3
    3.5.4.10
    GO:0003824 ... P31335 12501179
    25903 1m9n:A (1.93) BS02 XMP 2.1.2.3
    3.5.4.10
    GO:0003824 ... P31335 12501179 MOAD: Ki=0.12uM
    PDBbind: -logKd/Ki=6.92, Ki=0.12uM
    25904 1m9n:A (1.93) BS03 AMZ 2.1.2.3
    3.5.4.10
    GO:0003824 ... P31335 12501179
    25905 1m9n:B (1.93) BS01 AMZ 2.1.2.3
    3.5.4.10
    GO:0003824 ... P31335 12501179
    25906 1m9n:B (1.93) BS02 AMZ 2.1.2.3
    3.5.4.10
    GO:0003824 ... P31335 12501179
    25907 1m9n:B (1.93) BS03 XMP 2.1.2.3
    3.5.4.10
    GO:0003824 ... P31335 12501179 MOAD: Ki=0.12uM
    PDBbind: -logKd/Ki=6.92, Ki=0.12uM
    25908 1m9p:A (2.1) BS01 HEM ? GO:0004601 ... P69905 15858266
    25909 1m9p:B (2.1) BS01 HEM ? GO:0004601 ... P68871 15858266
    25910 1m9p:C (2.1) BS01 HEM ? GO:0004601 ... P69905 15858266
    25911 1m9p:D (2.1) BS01 HEM ? GO:0004601 ... P68871 15858266
    25912 1m9q:A (2.01) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25913 1m9q:A (2.01) BS02 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25914 1m9q:A (2.01) BS03 5NI 1.14.13.39 GO:0004517 ... P29474 12437348
    25915 1m9q:B (2.01) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25916 1m9q:B (2.01) BS02 5NI 1.14.13.39 GO:0004517 ... P29474 12437348
    25917 1m9q:B (2.01) BS03 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25918 1m9r:A (2.56) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25919 1m9r:A (2.56) BS02 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25920 1m9r:A (2.56) BS03 INE 1.14.13.39 GO:0004517 ... P29474 12437348
    25921 1m9r:A (2.56) BS04 INE 1.14.13.39 GO:0004517 ... P29474 12437348
    25922 1m9r:A (2.56) BS05 INE 1.14.13.39 GO:0004517 ... P29474 12437348
    25923 1m9r:B (2.56) BS01 ZN 1.14.13.39 GO:0004517 ... P29474 12437348
    25924 1m9r:B (2.56) BS02 INE 1.14.13.39 GO:0004517 ... P29474 12437348
    25925 1m9r:B (2.56) BS03 HEM 1.14.13.39 GO:0004517 ... P29474 12437348
    25926 1m9r:B (2.56) BS04 INE 1.14.13.39 GO:0004517 ... P29474 12437348
    25927 1m9r:B (2.56) BS05 INE 1.14.13.39 GO:0004517 ... P29474 12437348
    25928 1m9t:A (2.4) BS01 HEM 1.14.13.39 GO:0004517 ... P29477 12437348
    25929 1m9t:A (2.4) BS02 H4B 1.14.13.39 GO:0004517 ... P29477 12437348
    25930 1m9t:A (2.4) BS03 INE 1.14.13.39 GO:0004517 ... P29477 12437348 BindingDB: IC50=2200nM
    25931 1m9t:B (2.4) BS01 HEM 1.14.13.39 GO:0004517 ... P29477 12437348
    25932 1m9t:B (2.4) BS02 H4B 1.14.13.39 GO:0004517 ... P29477 12437348
    25933 1m9t:B (2.4) BS03 INE 1.14.13.39 GO:0004517 ... P29477 12437348 BindingDB: IC50=2200nM
    25934 1ma0:A (2.3) BS01 ZN 1.1.1.-
    1.1.1.1
    1.1.1.284
    GO:0001523 ... P11766 12196016
    25935 1ma0:A (2.3) BS02 ZN 1.1.1.-
    1.1.1.1
    1.1.1.284
    GO:0001523 ... P11766 12196016
    25936 1ma0:A (2.3) BS03 NAD 1.1.1.-
    1.1.1.1
    1.1.1.284
    GO:0001523 ... P11766 12196016
    25937 1ma0:B (2.3) BS01 ZN 1.1.1.-
    1.1.1.1
    1.1.1.284
    GO:0001523 ... P11766 12196016
    25938 1ma0:B (2.3) BS02 ZN 1.1.1.-
    1.1.1.1
    1.1.1.284
    GO:0001523 ... P11766 12196016
    25939 1ma0:B (2.3) BS03 NAD 1.1.1.-
    1.1.1.1
    1.1.1.284
    GO:0001523 ... P11766 12196016
    25940 1ma1:A (2.6) BS01 FE 1.15.1.1 GO:0004784 ... P18868 N/A
    25941 1ma1:B (2.6) BS01 FE 1.15.1.1 GO:0004784 ... P18868 N/A
    25942 1ma1:C (2.6) BS01 FE 1.15.1.1 GO:0004784 ... P18868 N/A
    25943 1ma1:D (2.6) BS01 FE 1.15.1.1 GO:0004784 ... P18868 N/A
    25944 1ma1:E (2.6) BS01 FE 1.15.1.1 GO:0004784 ... P18868 N/A
    25945 1ma1:F (2.6) BS01 FE 1.15.1.1 GO:0004784 ... P18868 N/A
    25946 1ma3:A (2.0) BS01 peptide 2.3.1.286 GO:0005737 ... O30124 12408821
    25947 1ma3:A (2.0) BS02 ZN 2.3.1.286 GO:0005737 ... O30124 12408821
    25948 1ma7:A (2.3) BS01 dna ? GO:0003677 ... P06956 12779336 PDBbind: Kd=146nM
    25949 1ma7:A (2.3) BS02 dna ? GO:0003677 ... P06956 12779336 PDBbind: Kd=146nM
    25950 1ma7:B (2.3) BS01 dna ? GO:0003677 ... P06956 12779336 PDBbind: Kd=146nM
    25951 1ma7:B (2.3) BS02 dna ? GO:0003677 ... P06956 12779336 PDBbind: Kd=146nM
    25952 1ma9:B (2.4) BS01 ATP 3.6.4.- GO:0000287 ... P68135 12554937
    25953 1maa:A (2.9) BS01 DME 3.1.1.7 GO:0001919 ... P21836 9915834 BindingDB: Ki=460nM
    25954 1maa:B (2.9) BS01 DME 3.1.1.7 GO:0001919 ... P21836 9915834 BindingDB: Ki=460nM
    25955 1maa:C (2.9) BS01 DME 3.1.1.7 GO:0001919 ... P21836 9915834 BindingDB: Ki=460nM
    25956 1maa:D (2.9) BS01 DME 3.1.1.7 GO:0001919 ... P21836 9915834 BindingDB: Ki=460nM
    25957 1mab:A (2.8) BS01 ATP 3.6.1.34 GO:0001937 ... P15999 9736690
    25958 1mab:B (2.8) BS01 ADP 7.1.2.2 GO:0001525 ... P10719 9736690
    25959 1mac:A (2.3) BS01 CA 3.2.1.73 GO:0004553 ... P23904 7852389
    25960 1mac:B (2.3) BS01 CA 3.2.1.73 GO:0004553 ... P23904 7852389
    25961 1mae:L (2.8) BS01 HDZ 1.4.9.1 GO:0009308 ... P22641 1390754
    25962 1maf:L (2.6) BS01 HDZ 1.4.9.1 GO:0009308 ... P22641 1390754
    25963 1mai:A (1.9) BS01 I3P 3.1.4.11 GO:0035556 ... P10688 8521504 MOAD: Kd=210nM
    PDBbind: -logKd/Ki=6.68, Kd=210nM
    25964 1map:A (2.4) BS01 KET 2.6.1.1
    2.6.1.7
    GO:0003824 ... P00508 7903048
    25965 1maq:A (2.3) BS01 PGU 2.6.1.1
    2.6.1.7
    GO:0003824 ... P00508 7903048
    25966 1mar:A (1.8) BS01 NAP 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54
    GO:0001523 ... P15121 8234324
    25967 1mat:A (2.4) BS01 CO 3.4.11.18 GO:0004177 ... P0AE18 8471602
    25968 1mat:A (2.4) BS02 CO 3.4.11.18 GO:0004177 ... P0AE18 8471602
    25969 1mau:A (2.15) BS01 ATP 6.1.1.2 GO:0000166 ... P00953 12473451 PDBbind: -logKd/Ki=11.30, Kd=5pM
    25970 1mau:A (2.15) BS02 LTN 6.1.1.2 GO:0000166 ... P00953 12473451
    25971 1mav:A (1.6) BS01 MN ? GO:0000160 ... Q9A5I4 12176983
    25972 1mav:A (1.6) BS02 MN ? GO:0000160 ... Q9A5I4 12176983
    25973 1maw:A (3.0) BS01 ATP 6.1.1.2 GO:0000166 ... P00953 12473451 PDBbind: -logKd/Ki=1.10, Kd=80mM
    25974 1maw:B (3.0) BS01 ATP 6.1.1.2 GO:0000166 ... P00953 12473451
    25975 1maw:C (3.0) BS01 ATP 6.1.1.2 GO:0000166 ... P00953 12473451
    25976 1maw:D (3.0) BS01 ATP 6.1.1.2 GO:0000166 ... P00953 12473451
    25977 1maw:E (3.0) BS01 ATP 6.1.1.2 GO:0000166 ... P00953 12473451
    25978 1maw:F (3.0) BS01 ATP 6.1.1.2 GO:0000166 ... P00953 12473451
    25979 1max:A (1.8) BS01 CA 3.4.21.4 GO:0004175 ... P00760 8605148
    25980 1max:A (1.8) BS02 ZAP 3.4.21.4 GO:0004175 ... P00760 8605148
    25981 1may:A (1.8) BS01 CA 3.4.21.4 GO:0004175 ... P00760 8605148
    25982 1may:A (1.8) BS02 ZAP 3.4.21.4 GO:0004175 ... P00760 8605148
    25983 1mb0:A (2.0) BS01 MN ? GO:0000160 ... Q9A5I4 12176983
    25984 1mb2:A (2.7) BS01 TRP 6.1.1.2 GO:0000166 ... P00953 12473451
    25985 1mb2:B (2.7) BS01 TRP 6.1.1.2 GO:0000166 ... P00953 12473451
    25986 1mb2:C (2.7) BS01 TRP 6.1.1.2 GO:0000166 ... P00953 12473451
    25987 1mb2:D (2.7) BS01 TRP 6.1.1.2 GO:0000166 ... P00953 12473451
    25988 1mb2:E (2.7) BS01 TRP 6.1.1.2 GO:0000166 ... P00953 12473451
    25989 1mb2:F (2.7) BS01 TRP 6.1.1.2 GO:0000166 ... P00953 12473451
    25990 1mb3:A (1.41) BS01 MG ? GO:0000160 ... Q9A5I4 12176983
    25991 1mb4:A (1.84) BS01 CYS 1.2.1.11 GO:0004073 ... Q9KQG2 12493825
    25992 1mb4:A (1.84) BS02 NDP 1.2.1.11 GO:0004073 ... Q9KQG2 12493825
    25993 1mb4:B (1.84) BS01 CYS 1.2.1.11 GO:0004073 ... Q9KQG2 12493825
    25994 1mb4:B (1.84) BS02 NDP 1.2.1.11 GO:0004073 ... Q9KQG2 12493825
    25995 1mb9:A (2.11) BS01 MG 6.3.3.4 GO:0004066 ... P0DJQ7 12409610
    25996 1mb9:A (2.11) BS02 POP 6.3.3.4 GO:0004066 ... P0DJQ7 12409610
    25997 1mb9:A (2.11) BS03 AMP 6.3.3.4 GO:0004066 ... P0DJQ7 12409610
    25998 1mb9:A (2.11) BS04 ATP 6.3.3.4 GO:0004066 ... P0DJQ7 12409610
    25999 1mb9:B (2.11) BS01 MG 6.3.3.4 GO:0004066 ... P0DJQ7 12409610
    26000 1mb9:B (2.11) BS02 ATP 6.3.3.4 GO:0004066 ... P0DJQ7 12409610

    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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