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BioLiP
Download all results in tab-seperated text for 903398 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.
  • 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
    64801 1yj3:A (1.6) BS02 CO 3.4.11.18 GO:0004177 ... P9WK19 15882055
    64802 1yj3:A (1.6) BS03 MET 3.4.11.18 GO:0004177 ... P9WK19 15882055
    64803 1yj6:A (2.5) BS01 GSH 2.5.1.18 GO:0004364 ... P09488 N/A
    64804 1yj6:B (2.5) BS01 GSH 2.5.1.18 GO:0004364 ... P09488 N/A
    64805 1yj6:C (2.5) BS01 GSH 2.5.1.18 GO:0004364 ... P09488 N/A
    64806 1yj9:1 (2.8) BS01 rna ? GO:0003723 ... P32410 15851032
    64807 1yj9:2 (2.8) BS01 rna ? GO:0003735 ... P22452 15851032
    64808 1yj9:3 (2.8) BS01 rna ? GO:0000049 ... P32411 15851032
    64809 1yj9:3 (2.8) BS02 MG ? GO:0000049 ... P32411 15851032
    64810 1yj9:A (2.8) BS01 rna ? GO:0002181 ... P20276 15851032
    64811 1yj9:B (2.8) BS01 rna ? GO:0003723 ... P20279 15851032
    64812 1yj9:C (2.8) BS01 rna ? GO:0003723 ... P12735 15851032
    64813 1yj9:D (2.8) BS01 rna ? GO:0000049 ... P14124 15851032
    64814 1yj9:D (2.8) BS02 rna ? GO:0000049 ... P14124 15851032
    64815 1yj9:E (2.8) BS01 rna ? GO:0002181 ... P14135 15851032
    64816 1yj9:F (2.8) BS01 rna ? GO:0001682 ... P12743 15851032
    64817 1yj9:H (2.8) BS01 rna ? GO:0000027 ... P60617 15851032
    64818 1yj9:I (2.8) BS01 rna ? GO:0003735 ... P14122 15851032
    64819 1yj9:J (2.8) BS01 rna ? GO:0003729 ... P29198 15851032
    64820 1yj9:K (2.8) BS01 rna ? GO:0003735 ... P22450 15851032
    64821 1yj9:L (2.8) BS01 rna ? GO:0003735 ... P12737 15851032
    64822 1yj9:M (2.8) BS01 rna ? GO:0002181 ... P60618 15851032
    64823 1yj9:N (2.8) BS01 rna ? GO:0000027 ... P14123 15851032
    64824 1yj9:N (2.8) BS02 rna ? GO:0000027 ... P14123 15851032
    64825 1yj9:O (2.8) BS01 rna ? GO:0003723 ... P12733 15851032
    64826 1yj9:P (2.8) BS01 rna ? GO:0003723 ... P14119 15851032
    64827 1yj9:Q (2.8) BS01 rna ? GO:0003735 ... P12734 15851032
    64828 1yj9:Q (2.8) BS02 rna ? GO:0003735 ... P12734 15851032
    64829 1yj9:R (2.8) BS01 rna ? GO:0002181 ... P10970 15851032
    64830 1yj9:S (2.8) BS01 rna ? GO:0000027 ... P12732 15851032
    64831 1yj9:T (2.8) BS01 rna ? GO:0002181 ... P10972 15851032
    64832 1yj9:T (2.8) BS02 MG ? GO:0002181 ... P10972 15851032
    64833 1yj9:U (2.8) BS01 rna ? GO:0003735 ... P14116 15851032
    64834 1yj9:V (2.8) BS01 rna ? GO:0003735 ... P10971 15851032
    64835 1yj9:W (2.8) BS01 rna ? GO:0000463 ... P14121 15851032
    64836 1yj9:W (2.8) BS02 rna ? GO:0000463 ... P14121 15851032
    64837 1yj9:X (2.8) BS01 rna ? GO:0002181 ... P18138 15851032
    64838 1yj9:Y (2.8) BS01 rna ? GO:0000166 ... P12736 15851032
    64839 1yj9:Y (2.8) BS02 MG ? GO:0000166 ... P12736 15851032
    64840 1yj9:Z (2.8) BS01 rna ? GO:0003735 ... P60619 15851032
    64841 1yja:A (1.8) BS01 CA 3.4.21.62 GO:0004252 ... P00782 10048334
    64842 1yja:A (1.8) BS02 CA 3.4.21.62 GO:0004252 ... P00782 10048334
    64843 1yjb:A (1.8) BS01 CA 3.4.21.62 GO:0004252 ... P00782 10048334
    64844 1yjb:A (1.8) BS02 CA 3.4.21.62 GO:0004252 ... P00782 10048334
    64845 1yjc:A (1.8) BS01 CA 3.4.21.62 GO:0004252 ... P00782 10048334
    64846 1yjc:A (1.8) BS02 CA 3.4.21.62 GO:0004252 ... P00782 10048334
    64847 1yjh:A (1.65) BS01 HEM ? GO:0004439 ... O76745 N/A
    64848 1yji:A (-1.00) BS01 FES ? GO:0005515 ... P00259 15966730
    64849 1yjj:A (-1.00) BS01 FES ? GO:0005515 ... P00259 15966730
    64850 1yjk:A (2.0) BS01 CU 1.14.17.3
    4.3.2.5    		 GO:0003824 ... P14925 16100265
    64851 1yjk:A (2.0) BS02 CU 1.14.17.3
    4.3.2.5    		 GO:0003824 ... P14925 16100265
    64852 1yjm:A (2.2) BS01 peptide 2.7.1.78
    3.1.3.32    		 N/A Q9JLV6 15749016
    64853 1yjm:B (2.2) BS01 peptide 2.7.1.78
    3.1.3.32    		 N/A Q9JLV6 15749016
    64854 1yjm:C (2.2) BS01 peptide 2.7.1.78
    3.1.3.32    		 N/A Q9JLV6 15749016
    64855 1yjn:1 (3.0) BS01 rna ? GO:0003723 ... P32410 15851032
    64856 1yjn:2 (3.0) BS01 rna ? GO:0003735 ... P22452 15851032
    64857 1yjn:3 (3.0) BS01 rna ? GO:0000049 ... P32411 15851032
    64858 1yjn:3 (3.0) BS02 MG ? GO:0000049 ... P32411 15851032
    64859 1yjn:A (3.0) BS01 rna ? GO:0002181 ... P20276 15851032
    64860 1yjn:A (3.0) BS02 MG ? GO:0002181 ... P20276 15851032
    64861 1yjn:B (3.0) BS01 rna ? GO:0003723 ... P20279 15851032
    64862 1yjn:C (3.0) BS01 rna ? GO:0003723 ... P12735 15851032
    64863 1yjn:D (3.0) BS01 rna ? GO:0000049 ... P14124 15851032
    64864 1yjn:D (3.0) BS02 rna ? GO:0000049 ... P14124 15851032
    64865 1yjn:E (3.0) BS01 rna ? GO:0002181 ... P14135 15851032
    64866 1yjn:F (3.0) BS01 rna ? GO:0001682 ... P12743 15851032
    64867 1yjn:H (3.0) BS01 rna ? GO:0000027 ... P60617 15851032
    64868 1yjn:I (3.0) BS01 rna ? GO:0003735 ... P14122 15851032
    64869 1yjn:J (3.0) BS01 rna ? GO:0003729 ... P29198 15851032
    64870 1yjn:K (3.0) BS01 rna ? GO:0003735 ... P22450 15851032
    64871 1yjn:L (3.0) BS01 rna ? GO:0003735 ... P12737 15851032
    64872 1yjn:M (3.0) BS01 rna ? GO:0002181 ... P60618 15851032
    64873 1yjn:N (3.0) BS01 rna ? GO:0000027 ... P14123 15851032
    64874 1yjn:N (3.0) BS02 rna ? GO:0000027 ... P14123 15851032
    64875 1yjn:O (3.0) BS01 rna ? GO:0003723 ... P12733 15851032
    64876 1yjn:P (3.0) BS01 rna ? GO:0003723 ... P14119 15851032
    64877 1yjn:Q (3.0) BS01 rna ? GO:0003735 ... P12734 15851032
    64878 1yjn:Q (3.0) BS02 rna ? GO:0003735 ... P12734 15851032
    64879 1yjn:R (3.0) BS01 rna ? GO:0002181 ... P10970 15851032
    64880 1yjn:S (3.0) BS01 rna ? GO:0000027 ... P12732 15851032
    64881 1yjn:T (3.0) BS01 rna ? GO:0002181 ... P10972 15851032
    64882 1yjn:T (3.0) BS02 MG ? GO:0002181 ... P10972 15851032
    64883 1yjn:U (3.0) BS01 rna ? GO:0003735 ... P14116 15851032
    64884 1yjn:V (3.0) BS01 rna ? GO:0003735 ... P10971 15851032
    64885 1yjn:W (3.0) BS01 rna ? GO:0000463 ... P14121 15851032
    64886 1yjn:W (3.0) BS02 rna ? GO:0000463 ... P14121 15851032
    64887 1yjn:X (3.0) BS01 rna ? GO:0002181 ... P18138 15851032
    64888 1yjn:Y (3.0) BS01 rna ? GO:0000166 ... P12736 15851032
    64889 1yjn:Y (3.0) BS02 MG ? GO:0000166 ... P12736 15851032
    64890 1yjn:Z (3.0) BS01 rna ? GO:0003735 ... P60619 15851032
    64891 1yjq:A (2.09) BS01 NAP 1.1.1.169 GO:0005737 ... P0A9J4 15966718 MOAD: Kd=6.5uM
    64892 1yjs:A (2.0) BS01 PLP 2.1.2.1 GO:0003824 ... Q7SIB6 15865438
    64893 1yjs:A (2.0) BS02 GLY 2.1.2.1 GO:0003824 ... Q7SIB6 15865438
    64894 1yjt:A (-1.00) BS01 CU1 7.2.2.8 GO:0046872 ... Q04656 16083905
    64895 1yjv:A (-1.00) BS01 CU1 7.2.2.8 GO:0046872 ... Q04656 16083905
    64896 1yjw:1 (2.9) BS01 rna ? GO:0003723 ... P32410 15851032
    64897 1yjw:2 (2.9) BS01 rna ? GO:0003735 ... P22452 15851032
    64898 1yjw:3 (2.9) BS01 rna ? GO:0000049 ... P32411 15851032
    64899 1yjw:3 (2.9) BS02 MG ? GO:0000049 ... P32411 15851032
    64900 1yjw:A (2.9) BS01 rna ? GO:0002181 ... P20276 15851032
    64901 1yjw:B (2.9) BS01 rna ? GO:0003723 ... P20279 15851032
    64902 1yjw:C (2.9) BS01 rna ? GO:0003723 ... P12735 15851032
    64903 1yjw:D (2.9) BS01 rna ? GO:0000049 ... P14124 15851032
    64904 1yjw:D (2.9) BS02 rna ? GO:0000049 ... P14124 15851032
    64905 1yjw:E (2.9) BS01 rna ? GO:0002181 ... P14135 15851032
    64906 1yjw:F (2.9) BS01 rna ? GO:0001682 ... P12743 15851032
    64907 1yjw:H (2.9) BS01 rna ? GO:0000027 ... P60617 15851032
    64908 1yjw:I (2.9) BS01 rna ? GO:0003735 ... P14122 15851032
    64909 1yjw:J (2.9) BS01 rna ? GO:0003729 ... P29198 15851032
    64910 1yjw:K (2.9) BS01 rna ? GO:0003735 ... P22450 15851032
    64911 1yjw:L (2.9) BS01 rna ? GO:0003735 ... P12737 15851032
    64912 1yjw:M (2.9) BS01 rna ? GO:0002181 ... P60618 15851032
    64913 1yjw:N (2.9) BS01 rna ? GO:0000027 ... P14123 15851032
    64914 1yjw:N (2.9) BS02 rna ? GO:0000027 ... P14123 15851032
    64915 1yjw:O (2.9) BS01 rna ? GO:0003723 ... P12733 15851032
    64916 1yjw:P (2.9) BS01 rna ? GO:0003723 ... P14119 15851032
    64917 1yjw:Q (2.9) BS01 rna ? GO:0003735 ... P12734 15851032
    64918 1yjw:Q (2.9) BS02 rna ? GO:0003735 ... P12734 15851032
    64919 1yjw:R (2.9) BS01 rna ? GO:0002181 ... P10970 15851032
    64920 1yjw:S (2.9) BS01 rna ? GO:0000027 ... P12732 15851032
    64921 1yjw:T (2.9) BS01 rna ? GO:0002181 ... P10972 15851032
    64922 1yjw:T (2.9) BS02 MG ? GO:0002181 ... P10972 15851032
    64923 1yjw:U (2.9) BS01 rna ? GO:0003735 ... P14116 15851032
    64924 1yjw:V (2.9) BS01 rna ? GO:0003735 ... P10971 15851032
    64925 1yjw:W (2.9) BS01 rna ? GO:0000463 ... P14121 15851032
    64926 1yjw:W (2.9) BS02 rna ? GO:0000463 ... P14121 15851032
    64927 1yjw:X (2.9) BS01 rna ? GO:0002181 ... P18138 15851032
    64928 1yjw:Y (2.9) BS01 rna ? GO:0000166 ... P12736 15851032
    64929 1yjw:Y (2.9) BS02 MG ? GO:0000166 ... P12736 15851032
    64930 1yjw:Z (2.9) BS01 rna ? GO:0003735 ... P60619 15851032
    64931 1yjx:B (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64932 1yjx:C (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64933 1yjx:D (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64934 1yjx:E (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64935 1yjx:G (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64936 1yjx:I (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64937 1yjx:J (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64938 1yjx:K (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64939 1yjx:L (2.8) BS01 CL 5.4.2.11
    5.4.2.4    		 GO:0003824 ... P18669 15883004
    64940 1yjy:A (2.25) BS01 PLP 2.1.2.1 GO:0003824 ... Q7SIB6 15865438
    64941 1yjy:A (2.25) BS02 SER 2.1.2.1 GO:0003824 ... Q7SIB6 15865438
    64942 1yjz:A (2.1) BS01 PLP 2.1.2.1 GO:0003824 ... Q7SIB6 15865438
    64943 1yk0:A (2.4) BS01 peptide ? GO:0016020 ... P17342 16870210
    64944 1yk0:B (2.4) BS01 peptide ? GO:0016020 ... P17342 16870210
    64945 1yk1:A (2.9) BS01 peptide ? GO:0016020 ... P17342 16870210
    64946 1yk1:B (2.9) BS01 peptide ? GO:0016020 ... P17342 16870210
    64947 1yk4:A (0.69) BS01 FE ? GO:0005506 ... Q9V099 15983423
    64948 1yk5:A (1.79) BS01 FE ? GO:0005506 ... Q9V099 15983423
    64949 1yk5:B (1.79) BS01 FE ? GO:0005506 ... Q9V099 15983423
    64950 1yk5:C (1.79) BS01 FE ? GO:0005506 ... Q9V099 15983423
    64951 1yk5:D (1.79) BS01 FE ? GO:0005506 ... Q9V099 15983423
    64952 1yk7:A (2.5) BS01 NBL 3.4.22.38 GO:0006508 ... P43235 15780613 PDBbind: -logKd/Ki=7.72, IC50=19nM
    64953 1yk8:A (2.6) BS01 T2M 3.4.22.38 GO:0006508 ... P43235 15896958
    64954 1ykb:A (2.6) BS01 FUC ? GO:0005125 ... Q9GZX6 15983417
    64955 1ykc:A (2.1) BS01 GDS 2.5.1.18 GO:0004364 ... P28161 N/A
    64956 1ykc:B (2.1) BS01 GDS 2.5.1.18 GO:0004364 ... P28161 N/A
    64957 1ykd:A (1.9) BS01 CMP 4.6.1.1 N/A P94182 15708973
    64958 1ykd:A (1.9) BS02 CMP 4.6.1.1 N/A P94182 15708973
    64959 1ykd:B (1.9) BS01 CMP 4.6.1.1 N/A P94182 15708973
    64960 1ykd:B (1.9) BS02 CMP 4.6.1.1 N/A P94182 15708973
    64961 1ykf:A (2.5) BS01 ZN 1.1.1.80 GO:0008270 ... P14941 9836873
    64962 1ykf:A (2.5) BS02 NAP 1.1.1.80 GO:0008270 ... P14941 9836873
    64963 1ykf:B (2.5) BS01 ZN 1.1.1.80 GO:0008270 ... P14941 9836873
    64964 1ykf:B (2.5) BS02 NAP 1.1.1.80 GO:0008270 ... P14941 9836873
    64965 1ykf:C (2.5) BS01 ZN 1.1.1.80 GO:0008270 ... P14941 9836873
    64966 1ykf:C (2.5) BS02 NAP 1.1.1.80 GO:0008270 ... P14941 9836873
    64967 1ykf:D (2.5) BS01 ZN 1.1.1.80 GO:0008270 ... P14941 9836873
    64968 1ykf:D (2.5) BS02 NAP 1.1.1.80 GO:0008270 ... P14941 9836873
    64969 1ykg:A (-1.00) BS01 FMN 1.8.1.2 GO:0010181 ... P38038 15966732
    64970 1yki:A (1.7) BS01 FMN 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64971 1yki:A (1.7) BS02 NFZ 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64972 1yki:A (1.7) BS03 FMN 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64973 1yki:A (1.7) BS04 NFZ 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64974 1yki:B (1.7) BS01 FMN 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64975 1yki:B (1.7) BS02 NFZ 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64976 1yki:B (1.7) BS03 FMN 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64977 1yki:B (1.7) BS04 NFZ 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64978 1yki:C (1.7) BS01 FMN 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64979 1yki:C (1.7) BS02 NFZ 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64980 1yki:C (1.7) BS03 FMN 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64981 1yki:C (1.7) BS04 NFZ 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64982 1yki:D (1.7) BS01 FMN 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64983 1yki:D (1.7) BS02 NFZ 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64984 1yki:D (1.7) BS03 FMN 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64985 1yki:D (1.7) BS04 NFZ 1.-.-.-
    1.5.1.34    		 GO:0003955 ... P38489 15684426
    64986 1ykj:A (2.0) BS01 FAD 1.14.13.2 GO:0004497 ... P20586 15924424
    64987 1ykj:B (2.0) BS01 FAD 1.14.13.2 GO:0004497 ... P20586 15924424
    64988 1ykj:B (2.0) BS02 PSL 1.14.13.2 GO:0004497 ... P20586 15924424
    64989 1ykj:B (2.0) BS03 PSL 1.14.13.2 GO:0004497 ... P20586 15924424
    64990 1ykk:B (2.06) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64991 1ykk:D (2.06) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64992 1ykk:F (2.06) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64993 1ykk:H (2.06) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64994 1ykk:J (2.06) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64995 1ykk:L (2.06) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64996 1ykl:B (2.25) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64997 1ykl:D (2.25) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64998 1ykl:F (2.25) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    64999 1ykl:H (2.25) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    65000 1ykl:J (2.25) BS01 FE 1.13.11.3 GO:0003824 ... P00437 16101286
    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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